| Next changeset 1:c261b6b05ee3 (2024-07-01) |
|
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9 |
|
added:
hicInterIntraTAD.xml macros.xml static/images/SRR027956.svg static/images/SRR0279XX_perChr_eigenvector1.png static/images/diagnostic_plot.png static/images/hicAggregateContacts.png static/images/hicCompareMatrices_QC_log2_m50_matrix_plot.png static/images/hicCompareMatrices_m1bp_over_gst_log2_m50_matrix_plot.png static/images/hicCorrelate_Dmel_heatmap.png static/images/hicCorrelate_Dmel_scatterplot.png static/images/hicCorrelate_pearson.png static/images/hicCorrelate_pearson_scatter.png static/images/hicCorrelate_spearman.png static/images/hicCorrelate_spearman_scatter.png static/images/hicDetectLoops.png static/images/hicMergeMatrixBins_Xchr.png static/images/hicMergeMatrixBins_Xregion.png static/images/hicPCA.png static/images/hicPlotDistVsCounts.png static/images/hicPlotDistVsCounts_result1.png static/images/hicPlotDistVsCounts_result2.png static/images/hicPlotMatrix.png static/images/hicPlotTADs.png static/images/hicQC.png static/images/hicQC_distance.png static/images/hicQC_pairs_discarded.png static/images/hicQC_pairs_sequenced.png static/images/hicQC_read_orientation.png static/images/hicQC_unmappable_and_non_unique.png static/images/master_TADs_plot.png static/images/plot_svl.png static/images/pulication_plots_viewpoint.png static/images/z-score.svg test-data/DpnII_10k.bed test-data/Li_et_al_2015.cool test-data/cHi-C/FL-E13-5_chr1.cool test-data/cHi-C/MB-E10-5_chr1.cool test-data/cHi-C/aggregate.tar.gz test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Eya1_aggregate.txt test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Sox17_aggregate.txt test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Tfap2d_aggregate.txt test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Eya1_aggregate.txt test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Sox17_aggregate.txt test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Tfap2d_aggregate.txt test-data/cHi-C/background.txt test-data/cHi-C/chicAggregateStatistic/aggregate.hdf5 test-data/cHi-C/chicAggregateStatistic/batch_mode.tar test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt test-data/cHi-C/chicAggregateStatistic/batch_mode_file_names.txt test-data/cHi-C/chicAggregateStatistic/regular_mode/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt test-data/cHi-C/chicAggregateStatistic/regular_mode/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2.tar test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_results.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_results.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile.tar test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_results.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_results.txt test-data/cHi-C/chicDifferentialTest/differential.hdf5 test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt test-data/cHi-C/chicDifferentialTest/rejectedFilesList.txt test-data/cHi-C/chicExportData/aggregate.tar.gz test-data/cHi-C/chicExportData/oneGene/FL-E13-5_chr1_genes_Eya1.bigwig test-data/cHi-C/chicExportData/oneGene/FL-E13-5_chr1_genes_Eya1_interactions.txt test-data/cHi-C/chicExportData/oneGene/MB-E10-5_chr1_genes_Eya1.bigwig test-data/cHi-C/chicExportData/oneGene/MB-E10-5_chr1_genes_Eya1_interactions.txt test-data/cHi-C/chicExportData/oneGene/background_FL-E13-5_chr1_genes_Eya1_interactions.bigwig test-data/cHi-C/chicExportData/oneGene/background_MB-E10-5_chr1_genes_Eya1_interactions.bigwig test-data/cHi-C/chicPlotViewpoint/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.png test-data/cHi-C/chicPlotViewpoint/batchMode/plots.tar test-data/cHi-C/chicPlotViewpoint/batchMode/two/Eya1_FL-E13-5_MB-E10-5_chr1_chr1_14300280.png test-data/cHi-C/chicPlotViewpoint/batchMode/two/Sox17_FL-E13-5_MB-E10-5_chr1_chr1_4487435.png test-data/cHi-C/chicPlotViewpoint/batchMode/two/Tfap2d_FL-E13-5_MB-E10-5_chr1_chr1_19093103.png test-data/cHi-C/chicQualityControl/histogram.png test-data/cHi-C/chicQualityControl/new_referencepoints.bed test-data/cHi-C/chicQualityControl/new_referencepoints.bed_failed_reference_points test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter test-data/cHi-C/chicQualityControl/new_referencepoints.bed_rejected_filter test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report test-data/cHi-C/chicQualityControl/sparsity.png test-data/cHi-C/chicSignificantInteractions/output_1/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_1_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt test-data/cHi-C/chicSignificantInteractions/output_2/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_2_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt test-data/cHi-C/chicSignificantInteractions/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_3/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_3_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt test-data/cHi-C/chicSignificantInteractions/output_3_target/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_output_significant.txt test-data/cHi-C/chicSignificantInteractions/output_4_significant_files.txt test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_target.txt test-data/cHi-C/chicSignificantInteractions/output_4_target_list.txt test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt test-data/cHi-C/chicSignificantInteractions/output_5_significant_files.txt test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt test-data/cHi-C/chicSignificantInteractions/output_5_target_list.txt test-data/cHi-C/chicSignificantInteractions/significantFilesFolder.tar test-data/cHi-C/chicSignificantInteractions/significantInteractions_dual.hdf5 test-data/cHi-C/chicSignificantInteractions/significantInteractions_single.hdf5 test-data/cHi-C/chicSignificantInteractions/targetFile_dual.hdf5 test-data/cHi-C/chicSignificantInteractions/targetFile_single.hdf5 test-data/cHi-C/chicSignificantInteractions/targetFolder.tar test-data/cHi-C/chicViewpoint/fileNames_one_matrix.txt test-data/cHi-C/chicViewpoint/fileNames_two_matrices.txt test-data/cHi-C/chicViewpoint/output_1.tar test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt test-data/cHi-C/chicViewpoint/two_matrices.hdf5 test-data/cHi-C/chicViewpoint/viewpoints.tar test-data/cHi-C/hg19.chrom.sizes test-data/cHi-C/plots.tar.gz test-data/cHi-C/referencePoints.bed test-data/cHi-C/referencePoints_chicViewpoint.bed test-data/cHi-C/target_list.bed test-data/distVsCounts.txt test-data/dm3_genes.bed.gz test-data/domains.bed test-data/find_TADs/multiFDR_boundaries.bed test-data/find_TADs/multiFDR_boundaries.gff test-data/find_TADs/multiFDR_domains.bed test-data/find_TADs/multiFDR_tad_score.bm test-data/find_TADs/multiFDR_zscore_matrix.h5 test-data/hicAggregateContacts/test_regions.bed test-data/hicAggregateContacts_results1.png test-data/hicAverageRegions/regions.bed test-data/hicAverageRegions/result.npz test-data/hicAverageRegions/result_rangeInBins_100.npz test-data/hicAverageRegions/result_range_100000.npz test-data/hicCompartmentsPolarization/compartmentsPolarizationRatio.png test-data/hicCompartmentsPolarization/output_matrix.npz test-data/hicCompartmentsPolarization/pca1.bedgraph test-data/hicConvertFormat/GSM1436265_RAD21_ENCFF002EMQ.txt test-data/hicConvertFormat/hg19.chrom.sizes test-data/hicConvertFormat/small_test_matrix_chr4.bed test-data/hicConvertFormat/small_test_matrix_chr4.cool test-data/hicConvertFormat/small_test_matrix_chr4.ginteractions.tsv test-data/hicConvertFormat/small_test_matrix_chr4.hicpro test-data/hicConvertFormat/small_test_matrix_chr4.homer test-data/hicConvertFormat/test_matrix.bed test-data/hicCorrectMatrix/diagnostic_plot.png test-data/hicCorrectMatrix/hicCorrectMatrix_result1.npz.h5 test-data/hicCorrelate_heatmap_result1.png test-data/hicCorrelate_scatter_result1.png test-data/hicDetectLoops/loops.bedgraph test-data/hicDifferentialTAD/accepted.txt test-data/hicDifferentialTAD/multiNone_domains.bed test-data/hicDifferentialTAD/rejected.txt test-data/hicFindRestrictionSites/reference_genome.fasta test-data/hicFindRestrictionSites/restriction_sites.bed test-data/hicHyperoptDetectLoops/hyperopt_results.txt test-data/hicHyperoptDetectLoops/loops.bedgraph test-data/hicInfo/hicInfo_output.txt test-data/hicInfo_output.txt test-data/hicInterIntraTAD/matrix.cool test-data/hicInterIntraTAD/output.txt test-data/hicInterIntraTAD/plot.png test-data/hicInterIntraTAD/untreated_R1_domains_chr1_chr2.bed test-data/hicMergeDomains/100kbtad_domains.bed test-data/hicMergeDomains/10kbtad_domains.bed test-data/hicMergeDomains/50kbtad_domains.bed test-data/hicMergeDomains/ctcf_plot/two_files_plot_1.pdf test-data/hicMergeDomains/ctcf_sorted.bed test-data/hicMergeDomains/merged_list.bed test-data/hicMergeDomains/relationship.txt test-data/hicMergeDomains/two_files_relation_ctcf.txt test-data/hicMergeLoops/gm12878_10kb.bedgraph test-data/hicMergeLoops/gm12878_25kb.bedgraph test-data/hicMergeLoops/gm12878_5kb.bedgraph test-data/hicMergeLoops/gm12878_all.bedgraph test-data/hicPCA/pca1_test1.bw test-data/hicPCA/pca1_test2.bw test-data/hicPCA/pca1_test3.bw test-data/hicPCA/pca2_test1.bw test-data/hicPCA/pca2_test2.bw test-data/hicPCA/pca2_test3.bw test-data/hicPlotAverageRegions/defaults.png test-data/hicPlotAverageRegions/defaults_log.png test-data/hicPlotAverageRegions/defaults_log1p.png test-data/hicPlotAverageRegions/defaults_log_vmin_vmax.png test-data/hicPlotDistVsCounts_result1.png test-data/hicPlotDistVsCounts_result2.png test-data/hicPlotMatrix/plot1.png test-data/hicPlotMatrix/plot2.pdf test-data/hicPlotMatrix/plot3_pca.svg test-data/hicPlotSVL/p_values.txt test-data/hicPlotSVL/plot.png test-data/hicPlotSVL/ratios.txt test-data/hicQuickQC/QC.log test-data/hicTADClassifier/predicted.txt test-data/hicTADClassifier/predicted_second_classifier.txt test-data/hicTADClassifier/unittest_classifier.BIN test-data/hicTrainTADClassifier/model.BIN test-data/hicTrainTADClassifier/multiFDR_dekker_domains.bed test-data/hicTrainTADClassifier/small_test_matrix.cool test-data/hicTransform/obs_exp_norm.h5 test-data/hicValidateLocations/GSM935376_hg19_Gm12878_Smc3.narrowPeak test-data/hicValidateLocations/loops_1.bedgraph test-data/hicValidateLocations/overlap_smc3_matched_locations test-data/hicValidateLocations/overlap_smc3_statistics test-data/li_32-33mb_interactions.bedgraph test-data/li_viewpoint_32-33Mb.png test-data/li_viewpoint_32Mb.png test-data/multiNone_domains.bed test-data/raw_qc_report test-data/regions.bed test-data/small_test_R1_unsorted.sam test-data/small_test_R2_unsorted.sam test-data/small_test_matrix.cool test-data/small_test_matrix.h5 test-data/small_test_matrix_result_sorted.bam |
| b |
| diff -r 000000000000 -r 55b013e59018 hicInterIntraTAD.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/hicInterIntraTAD.xml Wed Oct 18 17:02:07 2023 +0000 |
| [ |
| @@ -0,0 +1,79 @@ +<tool id="hicexplorer_hicinterintratad" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> + <description>computes the ratio of inter TAD-scores vs. intra TADs</description> + <macros> + <token name="@BINARY@">hicInterIntraTAD</token> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="exit_code"><![CDATA[ + ln -s '$matrix_h5_cooler' 'matrix.$matrix_h5_cooler.ext' && + + @BINARY@ + --matrix 'matrix.$matrix_h5_cooler.ext' + --tadDomains '$tadDomains' + + #if $fontSize: + --fontSize $fontSize + #end if + + #if $dpi: + --dpi $dpi + #end if + + --outFileName output_interintra.txt + --outFileNameRatioPlot plot.$image_file_format + --threads @THREADS@ + + && mv plot.$image_file_format plot + + ]]> </command> + <inputs> + <expand macro="matrix_h5_cooler_macro" /> + <param name="tadDomains" type="data" format="bed" label="Bed file with TAD domains coordinates" help="Bed file with domains coordinates: instead of evaluating the distance vs. Hi-C counts for intra chromosomal counts, compute it for intra-domains." /> + + <expand macro="dpi" /> + <param name="fontSize" type="integer" min="5" optional="True" label="Font size" help="Font size for the plot"/> + + <param name="image_file_format" type="select" label="Image output format"> + <option value="png" selected="True">png</option> + <option value="svg">svg</option> + <option value="pdf">pdf</option> + </param> + + </inputs> + <outputs> + <data name='output_txt' from_work_dir='output_interintra.txt' format='txt' label='Intra Inter TAD ratios'/> + + <data name='output_plot' from_work_dir='plot' format='png' label='Plot SVL'> + <change_format> + <when input="image_file_format" value="svg" format="svg" /> + <when input="image_file_format" value="pdf" format="pdf" /> + </change_format> + </data> + </outputs> + <tests> + <test> + <param name="matrix_h5_cooler" value="hicInterIntraTAD/matrix.cool" /> + <param name="tadDomains" value="hicInterIntraTAD/untreated_R1_domains_chr1_chr2.bed" /> + + <output name="output_txt" file="hicInterIntraTAD/output.txt" ftype="txt" /> + + <output name="output_plot" file="hicInterIntraTAD/plot.png" ftype="png" /> + + </test> + + </tests> + <help><![CDATA[ + +Calculate the ratio of inter-TAD contacts vs intra-TADs +======================================================= + +Toplogical domains (TADs) are large mainly self-interacting domains. Chromatin interactions occur with higher frequency within a TAD as between TADs. +This tool supports to compute the ratio of contacts of a TAD (intra-TAD) with the contacts outside of it (inter-TAD). + +For more information about HiCExplorer please consider our documentation on readthedocs.io_ + +.. _readthedocs.io: http://hicexplorer.readthedocs.io/en/latest/index.html +]]> </help> + <expand macro="citations" /> +</tool> |
| b |
| diff -r 000000000000 -r 55b013e59018 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Wed Oct 18 17:02:07 2023 +0000 |
| [ |
| b'@@ -0,0 +1,704 @@\n+<macros>\n+ <token name="@THREADS@">\\${GALAXY_SLOTS:-4}</token>\n+ <token name="@TOOL_VERSION@">3.7.2</token>\n+ <token name="@VERSION_SUFFIX@">0</token>\n+ <token name="@USE_RANGE@">\n+ #if $use_range.select_use_range == "yes_use_range":\n+ --range $use_range.range_min:$use_range.range_max\n+ #end if\n+ </token>\n+\n+ <xml name="requirements">\n+ <requirements>\n+ <requirement type="package" version="@TOOL_VERSION@">hicexplorer</requirement>\n+ <yield />\n+ </requirements>\n+ <version_command>@BINARY@ --version</version_command>\n+ </xml>\n+\n+ <token name="@CHROMOSOME_LIST@">\n+ #if $chromosome_list:\n+ #set $chromosomes = []\n+ #for $chrom in $chromosome_list:\n+ #silent $chromosomes.append("\'%s\'" % $chrom.chromosomes)\n+ #end for\n+ #set $chromosome_string = \' \'.join($chromosomes)\n+ --chromosomes $chromosome_string\n+ #end if\n+ </token>\n+\n+ <xml name="chromosome_list">\n+ <repeat name="chromosome_list" min="0" title="Chromosomes to include" help="Chromosomes to include in the analysis. If not set, all chromosomes are included.">\n+ <param argument="--chromosomes" type="text" value="">\n+ <validator type="empty_field" />\n+ </param>\n+ </repeat>\n+ </xml>\n+\n+ <xml name="citations">\n+ <citations>\n+ <citation type="doi">10.1093/nar/gkaa220</citation>\n+ <citation type="doi">10.1093/nar/gky504</citation>\n+ <yield />\n+ </citations>\n+ </xml>\n+ <xml name="dpi">\n+ <param argument=\'--dpi\' type=\'integer\' optional=\'true\' min="10" max="1000" label=\'DPI for image\' help=\'Change the default resolution of the plot.\' />\n+ </xml>\n+\n+ <xml name="restrictionCutFile">\n+ <param argument="--restrictionCutFile" type="data" format="bed" optional="false" label="BED file with all restriction cut places" help="Should contaion only mappable restriction sites. If given, the bins are set to match the restriction fragments\n+ (i.e. the region between one restriction site and the next)." />\n+ </xml>\n+\n+ <xml name="restrictionSequence">\n+ <param argument="--restrictionSequence" type="text" optional="false" label="Sequence of the restriction site" help="This is used to discard reads that end/start with such sequence and that are considered un-ligated fragments or\n+ "dangling-ends". If not given, such statistics will not be available.">\n+ <validator type="expression" message="Only alphabetic characters (a-z) are allowed.">value.isalpha()</validator>\n+ </param>\n+ </xml>\n+ <xml name="danglingSequence">\n+ <param argument="--danglingSequence" type="text" optional="false" label="Dangling sequence" help="Sequence left by the restriction enzyme after cutting.\n+ Each restriction enzyme recognizes a different DNA sequence and,\n+ after cutting, they leave behind a specific \xe2\x80\x98sticky\xe2\x80\x99 end or dangling end sequence.\n+ For example, for HindIII the restriction site is AAGCTT and the dangling end is AGCT.\n+ For DpnII, the restriction site and dangling end sequence are the same: GATC.\n+ This information is easily found on the description of the restriction enzyme.\n+ The dangling sequence is used to classify and report reads whose 5\xe2\x80\x99 end starts with such sequence as dangling-end reads.\n+ A significant portion of dangling-end reads in a sample are indicative of a problem with the re-ligation step of the protocol. ">\n+ <validator type="expression" message="Only alphabetic characters (a-z) are allowed.">value.isalpha()</validator>\n+ </param>\n+ </xml>\n+\n+ <xml name="zMax">\n+ <param argument="--zMax" name="zMax" type="float" optional="true" la'..b'e profile" />\n+ <param name="saveSortedRegions" type="boolean" label="Save the regions after skipping zeros or min/max threshold values" help="The order of the regions in the file follows the sorting order selected. This is useful, for example, to generate other heatmaps keeping the sorting of the first heatmap." />\n+ </when>\n+ </conditional>\n+ </xml>\n+\n+ <xml name="input_image_file_format">\n+ <param name="outFileFormat" type="select" label="Image file format">\n+ <option value="png" selected="true">png</option>\n+ <option value="pdf">pdf</option>\n+ <option value="svg">svg</option>\n+ <option value="eps">eps</option>\n+ <option value="emf">emf</option>\n+ </param>\n+ </xml>\n+\n+ <xml name="output_image_file_format">\n+ <data format="png" name="outFileName" label="${tool.name} image">\n+ <change_format>\n+ <when input="output.outFileFormat" value="pdf" format="pdf" />\n+ <when input="output.outFileFormat" value="svg" format="svg" />\n+ <when input="output.outFileFormat" value="eps" format="eps" />\n+ <when input="output.outFileFormat" value="emf" format="emf" />\n+ </change_format>\n+ </data>\n+ </xml>\n+\n+ <xml name="output_save_matrix_values">\n+ <data format="tabular" name="outFileNameMatrix" label="${tool.name} on ${on_string}: Heatmap values">\n+ <filter>\n+ ((\n+ output[\'showOutputSettings\'] == \'yes\' and\n+ output[\'saveMatrix\'] is True\n+ ))\n+ </filter>\n+ </data>\n+ </xml>\n+\n+ <xml name="output_graphic_outputs">\n+ <data format="tabular" name="outFileNameData" label="${tool.name} on ${on_string}: averages per matrix column">\n+ <filter>\n+ ((\n+ output[\'showOutputSettings\'] == \'yes\' and\n+ output[\'saveData\'] is True\n+ ))\n+ </filter>\n+ </data>\n+ <data format="bed" name="outFileSortedRegions" label="${tool.name} on ${on_string}: sorted/filtered regions">\n+ <filter>\n+ ((\n+ output[\'showOutputSettings\'] == \'yes\' and\n+ output[\'saveSortedRegions\'] is True\n+ ))\n+ </filter>\n+ </data>\n+ </xml>\n+\n+ <xml name="track_input_h5_macro">\n+ <param name="track_input_h5" type="data" format="h5, cool" label="Track file h5 or cool format" />\n+ </xml>\n+ <xml name="track_input_bed_macro">\n+ <param name="track_input_bed" type="data" format="bed" label="Track file BED format" />\n+ </xml>\n+ <xml name="track_input_bedgraph_macro">\n+ <param name="track_input_bedgraph" type="data" format="bedgraph" label="Track file bedgraph format" />\n+ </xml>\n+ <xml name="track_input_bigwig_macro">\n+ <param name="track_input_bigwig" type="data" format="bigwig" label="Track file bigwig format" />\n+ </xml>\n+ <xml name="track_input_bedgraph_matrix_macro">\n+ <param name="track_input_bedgraph_matrix" type="data" format="bedgraph" label="Track file bigwig format" />\n+ </xml>\n+ <xml name="track_input_tabular_macro">\n+ <param name="track_input_tabular" type="data" format="tabular" label="Track file tabular format" />\n+ </xml>\n+ <xml name="plot_title">\n+ <param name="title" type="text" optional="true" label="Plot title">\n+ <validator type="expression" message="Only alphanumeric characters and a space are allowed.">value.isalnum()</validator>\n+ </param>\n+ </xml>\n+\n+ <xml name="spacer_macro">\n+ <param name="spacer_width" type="float" value="" min="0" optional="True" label="Include spacer at the end of the track" help="Width of the spacer." />\n+ </xml>\n+ <xml name="fontsize_macro">\n+ <param name="fontsize" type="integer" value="" min="5" optional="True" label="Fontsize" />\n+ </xml>\n+</macros>\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/SRR027956.svg --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/static/images/SRR027956.svg Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,678 @@\n+<?xml version="1.0" encoding="utf-8" standalone="no"?>\n+<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN"\n+ "http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd">\n+<!-- Created with matplotlib (http://matplotlib.org/) -->\n+<svg height="432pt" version="1.1" viewBox="0 0 504 432" width="504pt" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">\n+ <defs>\n+ <style type="text/css">\n+*{stroke-linecap:butt;stroke-linejoin:round;}\n+ </style>\n+ </defs>\n+ <g id="figure_1">\n+ <g id="patch_1">\n+ <path d="M 0 432 \n+L 504 432 \n+L 504 0 \n+L 0 0 \n+z\n+" style="fill:#ffffff;"/>\n+ </g>\n+ <g id="axes_1">\n+ <g id="patch_2">\n+ <path d="M 57.6 374.4 \n+L 402.497561 374.4 \n+L 402.497561 28.8 \n+L 57.6 28.8 \n+z\n+" style="fill:#ffffff;"/>\n+ </g>\n+ <image height="345" id="image8c8ebbe161" transform="scale(1 -1)translate(0 -345)" width="344" x="58" xlink:href="data:image/png;base64,\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'..b'aVuSans-37"/>\n+ <use x="393.310547" xlink:href="#DejaVuSans-39"/>\n+ <use x="456.933594" xlink:href="#DejaVuSans-35"/>\n+ <use x="520.556641" xlink:href="#DejaVuSans-36"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="axes_2">\n+ <g id="patch_7">\n+ <path clip-path="url(#pda3c0c3bdd)" d="M 408.977561 374.4 \n+L 408.977561 373.05 \n+L 408.977561 30.15 \n+L 408.977561 28.8 \n+L 417.6 28.8 \n+L 417.6 30.15 \n+L 417.6 373.05 \n+L 417.6 374.4 \n+z\n+" style="fill:#ffffff;stroke:#ffffff;stroke-linejoin:miter;stroke-width:0.01;"/>\n+ </g>\n+ <image height="345" id="image0c8330bae8" transform="scale(1 -1)translate(0 -345)" width="9" x="409" xlink:href="data:image/png;base64,\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" y="-29"/>\n+ <g id="matplotlib.axis_3"/>\n+ <g id="matplotlib.axis_4">\n+ <g id="ytick_6">\n+ <g id="line2d_11">\n+ <defs>\n+ <path d="M 0 0 \n+L 3.5 0 \n+" id="m495cf070a1" style="stroke:#000000;stroke-width:0.8;"/>\n+ </defs>\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="374.4"/>\n+ </g>\n+ </g>\n+ <g id="text_14">\n+ <!-- 1 -->\n+ <g transform="translate(424.6 378.199219)scale(0.1 -0.1)">\n+ <use xlink:href="#DejaVuSans-31"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_7">\n+ <g id="line2d_12">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="327.082041"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_8">\n+ <g id="line2d_13">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="264.531101"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_9">\n+ <g id="line2d_14">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="217.213142"/>\n+ </g>\n+ </g>\n+ <g id="text_15">\n+ <!-- 10 -->\n+ <g transform="translate(424.6 221.01236)scale(0.1 -0.1)">\n+ <use xlink:href="#DejaVuSans-31"/>\n+ <use x="63.623047" xlink:href="#DejaVuSans-30"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_10">\n+ <g id="line2d_15">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="169.895182"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_11">\n+ <g id="line2d_16">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="107.344243"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_12">\n+ <g id="line2d_17">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="417.6" xlink:href="#m495cf070a1" y="60.026283"/>\n+ </g>\n+ </g>\n+ <g id="text_16">\n+ <!-- 100 -->\n+ <g transform="translate(424.6 63.825502)scale(0.1 -0.1)">\n+ <use xlink:href="#DejaVuSans-31"/>\n+ <use x="63.623047" xlink:href="#DejaVuSans-30"/>\n+ <use x="127.246094" xlink:href="#DejaVuSans-30"/>\n+ </g>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="patch_8">\n+ <path d="M 408.977561 374.4 \n+L 408.977561 373.05 \n+L 408.977561 30.15 \n+L 408.977561 28.8 \n+L 417.6 28.8 \n+L 417.6 30.15 \n+L 417.6 373.05 \n+L 417.6 374.4 \n+z\n+" style="fill:none;stroke:#000000;stroke-linejoin:miter;stroke-width:0.8;"/>\n+ </g>\n+ </g>\n+ </g>\n+ <defs>\n+ <clipPath id="pda3c0c3bdd">\n+ <rect height="345.6" width="8.622439" x="408.977561" y="28.8"/>\n+ </clipPath>\n+ </defs>\n+</svg>\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/SRR0279XX_perChr_eigenvector1.png |
| b |
| Binary file static/images/SRR0279XX_perChr_eigenvector1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/diagnostic_plot.png |
| b |
| Binary file static/images/diagnostic_plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicAggregateContacts.png |
| b |
| Binary file static/images/hicAggregateContacts.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCompareMatrices_QC_log2_m50_matrix_plot.png |
| b |
| Binary file static/images/hicCompareMatrices_QC_log2_m50_matrix_plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCompareMatrices_m1bp_over_gst_log2_m50_matrix_plot.png |
| b |
| Binary file static/images/hicCompareMatrices_m1bp_over_gst_log2_m50_matrix_plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCorrelate_Dmel_heatmap.png |
| b |
| Binary file static/images/hicCorrelate_Dmel_heatmap.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCorrelate_Dmel_scatterplot.png |
| b |
| Binary file static/images/hicCorrelate_Dmel_scatterplot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCorrelate_pearson.png |
| b |
| Binary file static/images/hicCorrelate_pearson.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCorrelate_pearson_scatter.png |
| b |
| Binary file static/images/hicCorrelate_pearson_scatter.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCorrelate_spearman.png |
| b |
| Binary file static/images/hicCorrelate_spearman.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicCorrelate_spearman_scatter.png |
| b |
| Binary file static/images/hicCorrelate_spearman_scatter.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicDetectLoops.png |
| b |
| Binary file static/images/hicDetectLoops.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicMergeMatrixBins_Xchr.png |
| b |
| Binary file static/images/hicMergeMatrixBins_Xchr.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicMergeMatrixBins_Xregion.png |
| b |
| Binary file static/images/hicMergeMatrixBins_Xregion.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicPCA.png |
| b |
| Binary file static/images/hicPCA.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicPlotDistVsCounts.png |
| b |
| Binary file static/images/hicPlotDistVsCounts.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicPlotDistVsCounts_result1.png |
| b |
| Binary file static/images/hicPlotDistVsCounts_result1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicPlotDistVsCounts_result2.png |
| b |
| Binary file static/images/hicPlotDistVsCounts_result2.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicPlotMatrix.png |
| b |
| Binary file static/images/hicPlotMatrix.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicPlotTADs.png |
| b |
| Binary file static/images/hicPlotTADs.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicQC.png |
| b |
| Binary file static/images/hicQC.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicQC_distance.png |
| b |
| Binary file static/images/hicQC_distance.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicQC_pairs_discarded.png |
| b |
| Binary file static/images/hicQC_pairs_discarded.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicQC_pairs_sequenced.png |
| b |
| Binary file static/images/hicQC_pairs_sequenced.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicQC_read_orientation.png |
| b |
| Binary file static/images/hicQC_read_orientation.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/hicQC_unmappable_and_non_unique.png |
| b |
| Binary file static/images/hicQC_unmappable_and_non_unique.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/master_TADs_plot.png |
| b |
| Binary file static/images/master_TADs_plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/plot_svl.png |
| b |
| Binary file static/images/plot_svl.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/pulication_plots_viewpoint.png |
| b |
| Binary file static/images/pulication_plots_viewpoint.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 static/images/z-score.svg --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/static/images/z-score.svg Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,27 @@ +<?xml version="1.0" standalone="no"?> +<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN" "http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd"> +<svg xmlns:xlink="http://www.w3.org/1999/xlink" width="10.647ex" height="4.843ex" style="vertical-align: -1.838ex;" viewBox="0 -1293.7 4584 2085" xmlns="http://www.w3.org/2000/svg"> +<defs> +<path stroke-width="10" id="E1-MJMATHI-7A" d="M347 338Q337 338 294 349T231 360Q211 360 197 356T174 346T162 335T155 324L153 320Q150 317 138 317Q117 317 117 325Q117 330 120 339Q133 378 163 406T229 440Q241 442 246 442Q271 442 291 425T329 392T367 375Q389 375 411 408T434 441Q435 442 449 442H462Q468 436 468 434Q468 430 463 420T449 399T432 377T418 358L411 349Q368 298 275 214T160 106L148 94L163 93Q185 93 227 82T290 71Q328 71 360 90T402 140Q406 149 409 151T424 153Q443 153 443 143Q443 138 442 134Q425 72 376 31T278 -11Q252 -11 232 6T193 40T155 57Q111 57 76 -3Q70 -11 59 -11H54H41Q35 -5 35 -2Q35 13 93 84Q132 129 225 214T340 322Q352 338 347 338Z"></path> +<path stroke-width="10" id="E1-MJMAIN-3D" d="M56 347Q56 360 70 367H707Q722 359 722 347Q722 336 708 328L390 327H72Q56 332 56 347ZM56 153Q56 168 72 173H708Q722 163 722 153Q722 140 707 133H70Q56 140 56 153Z"></path> +<path stroke-width="10" id="E1-MJMATHI-78" d="M52 289Q59 331 106 386T222 442Q257 442 286 424T329 379Q371 442 430 442Q467 442 494 420T522 361Q522 332 508 314T481 292T458 288Q439 288 427 299T415 328Q415 374 465 391Q454 404 425 404Q412 404 406 402Q368 386 350 336Q290 115 290 78Q290 50 306 38T341 26Q378 26 414 59T463 140Q466 150 469 151T485 153H489Q504 153 504 145Q504 144 502 134Q486 77 440 33T333 -11Q263 -11 227 52Q186 -10 133 -10H127Q78 -10 57 16T35 71Q35 103 54 123T99 143Q142 143 142 101Q142 81 130 66T107 46T94 41L91 40Q91 39 97 36T113 29T132 26Q168 26 194 71Q203 87 217 139T245 247T261 313Q266 340 266 352Q266 380 251 392T217 404Q177 404 142 372T93 290Q91 281 88 280T72 278H58Q52 284 52 289Z"></path> +<path stroke-width="10" id="E1-MJMAIN-2212" d="M84 237T84 250T98 270H679Q694 262 694 250T679 230H98Q84 237 84 250Z"></path> +<path stroke-width="10" id="E1-MJMATHI-3BC" d="M58 -216Q44 -216 34 -208T23 -186Q23 -176 96 116T173 414Q186 442 219 442Q231 441 239 435T249 423T251 413Q251 401 220 279T187 142Q185 131 185 107V99Q185 26 252 26Q261 26 270 27T287 31T302 38T315 45T327 55T338 65T348 77T356 88T365 100L372 110L408 253Q444 395 448 404Q461 431 491 431Q504 431 512 424T523 412T525 402L449 84Q448 79 448 68Q448 43 455 35T476 26Q485 27 496 35Q517 55 537 131Q543 151 547 152Q549 153 557 153H561Q580 153 580 144Q580 138 575 117T555 63T523 13Q510 0 491 -8Q483 -10 467 -10Q446 -10 429 -4T402 11T385 29T376 44T374 51L368 45Q362 39 350 30T324 12T288 -4T246 -11Q199 -11 153 12L129 -85Q108 -167 104 -180T92 -202Q76 -216 58 -216Z"></path> +<path stroke-width="10" id="E1-MJMATHI-3C3" d="M184 -11Q116 -11 74 34T31 147Q31 247 104 333T274 430Q275 431 414 431H552Q553 430 555 429T559 427T562 425T565 422T567 420T569 416T570 412T571 407T572 401Q572 357 507 357Q500 357 490 357T476 358H416L421 348Q439 310 439 263Q439 153 359 71T184 -11ZM361 278Q361 358 276 358Q152 358 115 184Q114 180 114 178Q106 141 106 117Q106 67 131 47T188 26Q242 26 287 73Q316 103 334 153T356 233T361 278Z"></path> +</defs> +<g stroke="currentColor" fill="currentColor" stroke-width="0" transform="matrix(1 0 0 -1 0 0)"> + <use xlink:href="#E1-MJMATHI-7A" x="0" y="0"></use> + <use xlink:href="#E1-MJMAIN-3D" x="750" y="0"></use> +<g transform="translate(1811,0)"> +<g transform="translate(120,0)"> +<rect stroke="none" width="2532" height="60" x="0" y="220"></rect> +<g transform="translate(60,745)"> + <use xlink:href="#E1-MJMATHI-78" x="0" y="0"></use> + <use xlink:href="#E1-MJMAIN-2212" x="799" y="0"></use> + <use xlink:href="#E1-MJMATHI-3BC" x="1804" y="0"></use> +</g> + <use xlink:href="#E1-MJMATHI-3C3" x="977" y="-686"></use> +</g> +</g> +</g> +</svg> \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/DpnII_10k.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/DpnII_10k.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,5000 @@\n+chr2L\t79\t83\t.\t0\t+\n+chr2L\t228\t232\t.\t0\t+\n+chr2L\t369\t373\t.\t0\t+\n+chr2L\t537\t541\t.\t0\t+\n+chr2L\t686\t690\t.\t0\t+\n+chr2L\t827\t831\t.\t0\t+\n+chr2L\t995\t999\t.\t0\t+\n+chr2L\t1144\t1148\t.\t0\t+\n+chr2L\t1285\t1289\t.\t0\t+\n+chr2L\t1453\t1457\t.\t0\t+\n+chr2L\t1602\t1606\t.\t0\t+\n+chr2L\t1743\t1747\t.\t0\t+\n+chr2L\t1911\t1915\t.\t0\t+\n+chr2L\t2060\t2064\t.\t0\t+\n+chr2L\t2201\t2205\t.\t0\t+\n+chr2L\t2369\t2373\t.\t0\t+\n+chr2L\t2518\t2522\t.\t0\t+\n+chr2L\t2659\t2663\t.\t0\t+\n+chr2L\t2827\t2831\t.\t0\t+\n+chr2L\t2976\t2980\t.\t0\t+\n+chr2L\t3117\t3121\t.\t0\t+\n+chr2L\t3285\t3289\t.\t0\t+\n+chr2L\t3434\t3438\t.\t0\t+\n+chr2L\t3575\t3579\t.\t0\t+\n+chr2L\t3743\t3747\t.\t0\t+\n+chr2L\t3892\t3896\t.\t0\t+\n+chr2L\t4033\t4037\t.\t0\t+\n+chr2L\t4201\t4205\t.\t0\t+\n+chr2L\t4350\t4354\t.\t0\t+\n+chr2L\t4491\t4495\t.\t0\t+\n+chr2L\t4659\t4663\t.\t0\t+\n+chr2L\t4808\t4812\t.\t0\t+\n+chr2L\t4949\t4953\t.\t0\t+\n+chr2L\t5117\t5121\t.\t0\t+\n+chr2L\t5151\t5155\t.\t0\t+\n+chr2L\t5300\t5304\t.\t0\t+\n+chr2L\t6022\t6026\t.\t0\t+\n+chr2L\t6878\t6882\t.\t0\t+\n+chr2L\t6920\t6924\t.\t0\t+\n+chr2L\t7691\t7695\t.\t0\t+\n+chr2L\t7714\t7718\t.\t0\t+\n+chr2L\t8550\t8554\t.\t0\t+\n+chr2L\t8794\t8798\t.\t0\t+\n+chr2L\t9692\t9696\t.\t0\t+\n+chr2L\t9745\t9749\t.\t0\t+\n+chr2L\t9800\t9804\t.\t0\t+\n+chr2L\t12439\t12443\t.\t0\t+\n+chr2L\t12691\t12695\t.\t0\t+\n+chr2L\t12712\t12716\t.\t0\t+\n+chr2L\t13064\t13068\t.\t0\t+\n+chr2L\t13291\t13295\t.\t0\t+\n+chr2L\t13321\t13325\t.\t0\t+\n+chr2L\t13563\t13567\t.\t0\t+\n+chr2L\t13719\t13723\t.\t0\t+\n+chr2L\t13807\t13811\t.\t0\t+\n+chr2L\t14019\t14023\t.\t0\t+\n+chr2L\t14035\t14039\t.\t0\t+\n+chr2L\t14065\t14069\t.\t0\t+\n+chr2L\t14230\t14234\t.\t0\t+\n+chr2L\t14665\t14669\t.\t0\t+\n+chr2L\t14818\t14822\t.\t0\t+\n+chr2L\t14871\t14875\t.\t0\t+\n+chr2L\t14972\t14976\t.\t0\t+\n+chr2L\t15073\t15077\t.\t0\t+\n+chr2L\t15371\t15375\t.\t0\t+\n+chr2L\t15662\t15666\t.\t0\t+\n+chr2L\t15837\t15841\t.\t0\t+\n+chr2L\t16091\t16095\t.\t0\t+\n+chr2L\t16173\t16177\t.\t0\t+\n+chr2L\t16954\t16958\t.\t0\t+\n+chr2L\t17447\t17451\t.\t0\t+\n+chr2L\t17583\t17587\t.\t0\t+\n+chr2L\t18026\t18030\t.\t0\t+\n+chr2L\t18551\t18555\t.\t0\t+\n+chr2L\t18815\t18819\t.\t0\t+\n+chr2L\t19786\t19790\t.\t0\t+\n+chr2L\t20256\t20260\t.\t0\t+\n+chr2L\t20388\t20392\t.\t0\t+\n+chr2L\t20831\t20835\t.\t0\t+\n+chr2L\t21356\t21360\t.\t0\t+\n+chr2L\t21641\t21645\t.\t0\t+\n+chr2L\t22094\t22098\t.\t0\t+\n+chr2L\t22350\t22354\t.\t0\t+\n+chr2L\t22504\t22508\t.\t0\t+\n+chr2L\t22669\t22673\t.\t0\t+\n+chr2L\t22730\t22734\t.\t0\t+\n+chr2L\t22734\t22738\t.\t0\t+\n+chr2L\t23026\t23030\t.\t0\t+\n+chr2L\t24357\t24361\t.\t0\t+\n+chr2L\t25083\t25087\t.\t0\t+\n+chr2L\t26560\t26564\t.\t0\t+\n+chr2L\t26684\t26688\t.\t0\t+\n+chr2L\t27423\t27427\t.\t0\t+\n+chr2L\t27495\t27499\t.\t0\t+\n+chr2L\t28150\t28154\t.\t0\t+\n+chr2L\t28208\t28212\t.\t0\t+\n+chr2L\t28346\t28350\t.\t0\t+\n+chr2L\t28561\t28565\t.\t0\t+\n+chr2L\t28705\t28709\t.\t0\t+\n+chr2L\t29021\t29025\t.\t0\t+\n+chr2L\t29720\t29724\t.\t0\t+\n+chr2L\t29912\t29916\t.\t0\t+\n+chr2L\t30346\t30350\t.\t0\t+\n+chr2L\t31057\t31061\t.\t0\t+\n+chr2L\t31074\t31078\t.\t0\t+\n+chr2L\t31399\t31403\t.\t0\t+\n+chr2L\t31487\t31491\t.\t0\t+\n+chr2L\t31531\t31535\t.\t0\t+\n+chr2L\t32017\t32021\t.\t0\t+\n+chr2L\t32453\t32457\t.\t0\t+\n+chr2L\t32487\t32491\t.\t0\t+\n+chr2L\t32833\t32837\t.\t0\t+\n+chr2L\t33597\t33601\t.\t0\t+\n+chr2L\t33755\t33759\t.\t0\t+\n+chr2L\t33988\t33992\t.\t0\t+\n+chr2L\t34487\t34491\t.\t0\t+\n+chr2L\t34579\t34583\t.\t0\t+\n+chr2L\t36694\t36698\t.\t0\t+\n+chr2L\t36710\t36714\t.\t0\t+\n+chr2L\t37054\t37058\t.\t0\t+\n+chr2L\t38499\t38503\t.\t0\t+\n+chr2L\t38558\t38562\t.\t0\t+\n+chr2L\t38619\t38623\t.\t0\t+\n+chr2L\t39245\t39249\t.\t0\t+\n+chr2L\t39324\t39328\t.\t0\t+\n+chr2L\t40179\t40183\t.\t0\t+\n+chr2L\t40563\t40567\t.\t0\t+\n+chr2L\t40786\t40790\t.\t0\t+\n+chr2L\t41461\t41465\t.\t0\t+\n+chr2L\t41888\t41892\t.\t0\t+\n+chr2L\t42002\t42006\t.\t0\t+\n+chr2L\t43327\t43331\t.\t0\t+\n+chr2L\t43420\t43424\t.\t0\t+\n+chr2L\t44351\t44355\t.\t0\t+\n+chr2L\t44544\t44548\t.\t0\t+\n+chr2L\t45260\t45264\t.\t0\t+\n+chr2L\t47323\t47327\t.\t0\t+\n+chr2L\t47590\t47594\t.\t0\t+\n+chr2L\t47613\t47617\t.\t0\t+\n+chr2L\t48097\t48101\t.\t0\t+\n+chr2L\t48239\t48243\t.\t0\t+\n+chr2L\t48539\t48543\t.\t0\t+\n+chr2L\t48791\t48795\t.\t0\t+\n+chr2L\t49070\t49074\t.\t0\t+\n+chr2L\t49160\t49164\t.\t0\t+\n+chr2L\t49642\t49646\t.\t0\t+\n+chr2L\t50006\t50010\t.\t0\t+\n+chr2L\t50518\t50522\t.\t0\t+\n+chr2L\t50535\t50539\t.\t0\t+\n+chr2L\t50932\t50936\t.\t0\t+\n+chr2L\t50968\t50972\t.\t0\t+\n+chr2L\t51060\t51064\t.\t0\t+\n+chr2L\t51150\t51154\t.\t0\t+\n+chr2L\t51786\t51790\t.\t0\t+\n+chr2L\t52032\t52036\t.\t0\t+\n+chr2L\t52038\t52042\t.\t0\t+\n+chr2L\t52461\t52465\t.\t0\t+\n+chr2L\t52497\t52501\t.\t0\t+\n+chr2L\t53141\t53145\t.\t0\t+\n+chr2L\t53244\t53248\t.\t0\t+\n+chr2L\t53319\t53323\t.\t0\t+\n+chr2L\t53396\t53400\t.\t0\t+\n+chr2L\t53944\t53948\t.\t0\t+\n+chr2L\t54049\t'..b'hr2L\t1716840\t1716844\t.\t0\t+\n+chr2L\t1717002\t1717006\t.\t0\t+\n+chr2L\t1717183\t1717187\t.\t0\t+\n+chr2L\t1717774\t1717778\t.\t0\t+\n+chr2L\t1718156\t1718160\t.\t0\t+\n+chr2L\t1718488\t1718492\t.\t0\t+\n+chr2L\t1718705\t1718709\t.\t0\t+\n+chr2L\t1718900\t1718904\t.\t0\t+\n+chr2L\t1719812\t1719816\t.\t0\t+\n+chr2L\t1719966\t1719970\t.\t0\t+\n+chr2L\t1720287\t1720291\t.\t0\t+\n+chr2L\t1720446\t1720450\t.\t0\t+\n+chr2L\t1720843\t1720847\t.\t0\t+\n+chr2L\t1720860\t1720864\t.\t0\t+\n+chr2L\t1720889\t1720893\t.\t0\t+\n+chr2L\t1721487\t1721491\t.\t0\t+\n+chr2L\t1721499\t1721503\t.\t0\t+\n+chr2L\t1721582\t1721586\t.\t0\t+\n+chr2L\t1722014\t1722018\t.\t0\t+\n+chr2L\t1722269\t1722273\t.\t0\t+\n+chr2L\t1722375\t1722379\t.\t0\t+\n+chr2L\t1722948\t1722952\t.\t0\t+\n+chr2L\t1723205\t1723209\t.\t0\t+\n+chr2L\t1723239\t1723243\t.\t0\t+\n+chr2L\t1723250\t1723254\t.\t0\t+\n+chr2L\t1723638\t1723642\t.\t0\t+\n+chr2L\t1723889\t1723893\t.\t0\t+\n+chr2L\t1724299\t1724303\t.\t0\t+\n+chr2L\t1724342\t1724346\t.\t0\t+\n+chr2L\t1724588\t1724592\t.\t0\t+\n+chr2L\t1724645\t1724649\t.\t0\t+\n+chr2L\t1724750\t1724754\t.\t0\t+\n+chr2L\t1724850\t1724854\t.\t0\t+\n+chr2L\t1724985\t1724989\t.\t0\t+\n+chr2L\t1725106\t1725110\t.\t0\t+\n+chr2L\t1725256\t1725260\t.\t0\t+\n+chr2L\t1725284\t1725288\t.\t0\t+\n+chr2L\t1725290\t1725294\t.\t0\t+\n+chr2L\t1725388\t1725392\t.\t0\t+\n+chr2L\t1725409\t1725413\t.\t0\t+\n+chr2L\t1725460\t1725464\t.\t0\t+\n+chr2L\t1725598\t1725602\t.\t0\t+\n+chr2L\t1725681\t1725685\t.\t0\t+\n+chr2L\t1725694\t1725698\t.\t0\t+\n+chr2L\t1725756\t1725760\t.\t0\t+\n+chr2L\t1725867\t1725871\t.\t0\t+\n+chr2L\t1725916\t1725920\t.\t0\t+\n+chr2L\t1725922\t1725926\t.\t0\t+\n+chr2L\t1725961\t1725965\t.\t0\t+\n+chr2L\t1726054\t1726058\t.\t0\t+\n+chr2L\t1726132\t1726136\t.\t0\t+\n+chr2L\t1726183\t1726187\t.\t0\t+\n+chr2L\t1726213\t1726217\t.\t0\t+\n+chr2L\t1726233\t1726237\t.\t0\t+\n+chr2L\t1726357\t1726361\t.\t0\t+\n+chr2L\t1726408\t1726412\t.\t0\t+\n+chr2L\t1726624\t1726628\t.\t0\t+\n+chr2L\t1727555\t1727559\t.\t0\t+\n+chr2L\t1727659\t1727663\t.\t0\t+\n+chr2L\t1728200\t1728204\t.\t0\t+\n+chr2L\t1728459\t1728463\t.\t0\t+\n+chr2L\t1728542\t1728546\t.\t0\t+\n+chr2L\t1729035\t1729039\t.\t0\t+\n+chr2L\t1729071\t1729075\t.\t0\t+\n+chr2L\t1729158\t1729162\t.\t0\t+\n+chr2L\t1729163\t1729167\t.\t0\t+\n+chr2L\t1729173\t1729177\t.\t0\t+\n+chr2L\t1729373\t1729377\t.\t0\t+\n+chr2L\t1729865\t1729869\t.\t0\t+\n+chr2L\t1729869\t1729873\t.\t0\t+\n+chr2L\t1730048\t1730052\t.\t0\t+\n+chr2L\t1730316\t1730320\t.\t0\t+\n+chr2L\t1730398\t1730402\t.\t0\t+\n+chr2L\t1730429\t1730433\t.\t0\t+\n+chr2L\t1730784\t1730788\t.\t0\t+\n+chr2L\t1730817\t1730821\t.\t0\t+\n+chr2L\t1731386\t1731390\t.\t0\t+\n+chr2L\t1731438\t1731442\t.\t0\t+\n+chr2L\t1731779\t1731783\t.\t0\t+\n+chr2L\t1733293\t1733297\t.\t0\t+\n+chr2L\t1733375\t1733379\t.\t0\t+\n+chr2L\t1733399\t1733403\t.\t0\t+\n+chr2L\t1733406\t1733410\t.\t0\t+\n+chr2L\t1733433\t1733437\t.\t0\t+\n+chr2L\t1734073\t1734077\t.\t0\t+\n+chr2L\t1734237\t1734241\t.\t0\t+\n+chr2L\t1734683\t1734687\t.\t0\t+\n+chr2L\t1734782\t1734786\t.\t0\t+\n+chr2L\t1734909\t1734913\t.\t0\t+\n+chr2L\t1735511\t1735515\t.\t0\t+\n+chr2L\t1736167\t1736171\t.\t0\t+\n+chr2L\t1736179\t1736183\t.\t0\t+\n+chr2L\t1736184\t1736188\t.\t0\t+\n+chr2L\t1736244\t1736248\t.\t0\t+\n+chr2L\t1736432\t1736436\t.\t0\t+\n+chr2L\t1736563\t1736567\t.\t0\t+\n+chr2L\t1736752\t1736756\t.\t0\t+\n+chr2L\t1736964\t1736968\t.\t0\t+\n+chr2L\t1737472\t1737476\t.\t0\t+\n+chr2L\t1737532\t1737536\t.\t0\t+\n+chr2L\t1738566\t1738570\t.\t0\t+\n+chr2L\t1739061\t1739065\t.\t0\t+\n+chr2L\t1739125\t1739129\t.\t0\t+\n+chr2L\t1739290\t1739294\t.\t0\t+\n+chr2L\t1739358\t1739362\t.\t0\t+\n+chr2L\t1739612\t1739616\t.\t0\t+\n+chr2L\t1740131\t1740135\t.\t0\t+\n+chr2L\t1740154\t1740158\t.\t0\t+\n+chr2L\t1740993\t1740997\t.\t0\t+\n+chr2L\t1741412\t1741416\t.\t0\t+\n+chr2L\t1742003\t1742007\t.\t0\t+\n+chr2L\t1742094\t1742098\t.\t0\t+\n+chr2L\t1742152\t1742156\t.\t0\t+\n+chr2L\t1742517\t1742521\t.\t0\t+\n+chr2L\t1743441\t1743445\t.\t0\t+\n+chr2L\t1743534\t1743538\t.\t0\t+\n+chr2L\t1743632\t1743636\t.\t0\t+\n+chr2L\t1743837\t1743841\t.\t0\t+\n+chr2L\t1744635\t1744639\t.\t0\t+\n+chr2L\t1744841\t1744845\t.\t0\t+\n+chr2L\t1745303\t1745307\t.\t0\t+\n+chr2L\t1745375\t1745379\t.\t0\t+\n+chr2L\t1745380\t1745384\t.\t0\t+\n+chr2L\t1745471\t1745475\t.\t0\t+\n+chr2L\t1745836\t1745840\t.\t0\t+\n+chr2L\t1745870\t1745874\t.\t0\t+\n+chr2L\t1745876\t1745880\t.\t0\t+\n+chr2L\t1745958\t1745962\t.\t0\t+\n+chr2L\t1746543\t1746547\t.\t0\t+\n+chr2L\t1746993\t1746997\t.\t0\t+\n+chr2L\t1747008\t1747012\t.\t0\t+\n+chr2L\t1747249\t1747253\t.\t0\t+\n+chr2L\t1748243\t1748247\t.\t0\t+\n+chr2L\t1748368\t1748372\t.\t0\t+\n+chr2L\t1748387\t1748391\t.\t0\t+\n+chr2L\t1748397\t1748401\t.\t0\t+\n+chr2L\t1748464\t1748468\t.\t0\t+\n\\ No newline at end of file\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/Li_et_al_2015.cool |
| b |
| Binary file test-data/Li_et_al_2015.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/FL-E13-5_chr1.cool |
| b |
| Binary file test-data/cHi-C/FL-E13-5_chr1.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/MB-E10-5_chr1.cool |
| b |
| Binary file test-data/cHi-C/MB-E10-5_chr1.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate.tar.gz |
| b |
| Binary file test-data/cHi-C/aggregate.tar.gz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Eya1_aggregate.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Eya1_aggregate.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# Chromosome Start End Gene Sum of interactions Relative position Raw +chr1 14274000 14278000 Eya1 673.000000000000 -23000 5.600000000000 +chr1 14295000 14298000 Eya1 673.000000000000 -3000 44.400000000000 +chr1 14314000 14319000 Eya1 673.000000000000 18000 24.200000000000 +chr1 14426000 14432000 Eya1 673.000000000000 131000 2.400000000000 +chr1 14447000 14455000 Eya1 673.000000000000 154000 4.400000000000 +chr1 14460000 14465000 Eya1 673.000000000000 164000 3.200000000000 +chr1 14480000 14488000 Eya1 673.000000000000 187000 7.600000000000 +chr1 14491000 14501000 Eya1 673.000000000000 200000 20.650000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Sox17_aggregate.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Sox17_aggregate.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# Chromosome Start End Gene Sum of interactions Relative position Raw +chr1 4481000 4488000 Sox17 810.000000000000 0 297.800000000000 +chr1 4499000 4502000 Sox17 810.000000000000 14000 20.400000000000 +chr1 4509000 4515000 Sox17 810.000000000000 27000 27.800000000000 +chr1 4561000 4567000 Sox17 810.000000000000 79000 11.600000000000 +chr1 4585000 4590000 Sox17 810.000000000000 102000 8.000000000000 +chr1 4652000 4658000 Sox17 810.000000000000 170000 6.000000000000 +chr1 4664000 4669000 Sox17 810.000000000000 181000 1.200000000000 +chr1 4674000 4679000 Sox17 810.000000000000 191000 1.600000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Tfap2d_aggregate.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_FL-E13-5_chr1_chr1_Tfap2d_aggregate.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Chromosome Start End Gene Sum of interactions Relative position Raw +chr1 19078000 19081000 Tfap2d 472.000000000000 -13000 0.000000000000 +chr1 19086000 19091000 Tfap2d 472.000000000000 -3000 32.800000000000 +chr1 19104000 19106000 Tfap2d 472.000000000000 12000 10.600000000000 +chr1 19109000 19114000 Tfap2d 472.000000000000 20000 18.600000000000 +chr1 19125000 19129000 Tfap2d 472.000000000000 35000 7.800000000000 +chr1 19133000 19139000 Tfap2d 472.000000000000 45000 10.000000000000 +chr1 19182000 19185000 Tfap2d 472.000000000000 91000 1.000000000000 +chr1 19189000 19238000 Tfap2d 472.000000000000 144000 25.800000000000 +chr1 19254000 19261000 Tfap2d 472.000000000000 167000 6.400000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Eya1_aggregate.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Eya1_aggregate.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# Chromosome Start End Gene Sum of interactions Relative position Raw +chr1 14274000 14278000 Eya1 832.000000000000 -23000 0.000000000000 +chr1 14295000 14298000 Eya1 832.000000000000 -3000 49.800000000000 +chr1 14314000 14319000 Eya1 832.000000000000 18000 23.400000000000 +chr1 14426000 14432000 Eya1 832.000000000000 131000 9.000000000000 +chr1 14447000 14455000 Eya1 832.000000000000 154000 12.400000000000 +chr1 14460000 14465000 Eya1 832.000000000000 164000 7.600000000000 +chr1 14480000 14488000 Eya1 832.000000000000 187000 3.200000000000 +chr1 14491000 14501000 Eya1 832.000000000000 200000 18.750000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Sox17_aggregate.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Sox17_aggregate.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# Chromosome Start End Gene Sum of interactions Relative position Raw +chr1 4481000 4488000 Sox17 978.000000000000 0 400.400000000000 +chr1 4499000 4502000 Sox17 978.000000000000 14000 21.000000000000 +chr1 4509000 4515000 Sox17 978.000000000000 27000 13.200000000000 +chr1 4561000 4567000 Sox17 978.000000000000 79000 12.400000000000 +chr1 4585000 4590000 Sox17 978.000000000000 102000 2.400000000000 +chr1 4652000 4658000 Sox17 978.000000000000 170000 5.000000000000 +chr1 4664000 4669000 Sox17 978.000000000000 181000 5.400000000000 +chr1 4674000 4679000 Sox17 978.000000000000 191000 5.200000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Tfap2d_aggregate.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/aggregate/FL-E13-5_chr1_MB-E10-5_chr1_MB-E10-5_chr1_chr1_Tfap2d_aggregate.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Chromosome Start End Gene Sum of interactions Relative position Raw +chr1 19078000 19081000 Tfap2d 800.000000000000 -13000 9.000000000000 +chr1 19086000 19091000 Tfap2d 800.000000000000 -3000 88.600000000000 +chr1 19104000 19106000 Tfap2d 800.000000000000 12000 14.800000000000 +chr1 19109000 19114000 Tfap2d 800.000000000000 20000 22.200000000000 +chr1 19125000 19129000 Tfap2d 800.000000000000 35000 8.800000000000 +chr1 19133000 19139000 Tfap2d 800.000000000000 45000 12.800000000000 +chr1 19182000 19185000 Tfap2d 800.000000000000 91000 5.000000000000 +chr1 19189000 19238000 Tfap2d 800.000000000000 144000 126.600000000000 +chr1 19254000 19261000 Tfap2d 800.000000000000 167000 1.400000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/background.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/background.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1002 @@\n+Relative position\tsize nbinom\tprob nbinom\tmax value\tmean value\n+-500000\t137.858473011804\t0.995405146787\t1.333333333333\t0.000543195980\n+-499000\t147.229076328303\t0.996053553980\t1.500000000000\t0.000497929648\n+-498000\t157.681167397960\t0.997075439230\t1.200000000000\t0.000394787078\n+-497000\t162.845011818209\t0.997421060405\t1.000000000000\t0.000359407866\n+-496000\t131.489161266395\t0.997174285891\t0.800000000000\t0.000318157645\n+-495000\t139.387908705363\t0.997380157213\t0.800000000000\t0.000311747258\n+-494000\t127.546293271132\t0.997238202254\t1.000000000000\t0.000305871070\n+-493000\t138.234947009504\t0.997287467570\t1.000000000000\t0.000319169812\n+-492000\t118.867084591776\t0.996746150847\t1.200000000000\t0.000333308009\n+-491000\t136.692711366757\t0.997596976644\t1.000000000000\t0.000279357932\n+-490000\t110.311895489180\t0.996860907065\t1.400000000000\t0.000296511490\n+-489000\t93.139811319915\t0.996396505949\t0.800000000000\t0.000287526293\n+-488000\t135.496044758383\t0.997607137097\t0.800000000000\t0.000277417947\n+-487000\t127.813813219580\t0.997234940661\t0.600000000000\t0.000303499976\n+-486000\t138.353019519830\t0.997370872576\t0.600000000000\t0.000311310637\n+-485000\t117.734214653130\t0.997150703846\t0.600000000000\t0.000287526293\n+-484000\t253.906771790139\t0.998721633870\t0.600000000000\t0.000277417947\n+-483000\t113.681955345001\t0.997258633583\t0.600000000000\t0.000266748026\n+-482000\t106.528817763059\t0.997446977501\t0.400000000000\t0.000232798277\n+-481000\t142.203512694686\t0.998164187841\t0.400000000000\t0.000223247579\n+-480000\t127.178039312326\t0.998116433009\t0.400000000000\t0.000204862484\n+-479000\t104.775871359451\t0.997936356279\t0.400000000000\t0.000184945298\n+-478000\t199.346310733692\t0.998727253220\t0.800000000000\t0.000216243733\n+-477000\t102.578276783249\t0.997550077888\t0.600000000000\t0.000219495518\n+-476000\t115.721950704400\t0.997595872644\t0.600000000000\t0.000241851543\n+-475000\t133.590972420114\t0.997943339775\t0.600000000000\t0.000234738263\n+-474000\t121.058775531555\t0.997410576803\t0.600000000000\t0.000268272300\n+-473000\t116.067738306830\t0.997619790696\t0.600000000000\t0.000236379789\n+-472000\t117.774900215669\t0.997459234865\t0.600000000000\t0.000256078105\n+-471000\t121.831143225353\t0.997650971922\t0.600000000000\t0.000248318162\n+-470000\t134.822925091174\t0.997041915657\t1.400000000000\t0.000341437473\n+-469000\t103.392243655163\t0.996159986674\t1.400000000000\t0.000341437473\n+-468000\t111.136948584269\t0.996810190304\t1.400000000000\t0.000307293726\n+-467000\t129.988284689535\t0.997433199130\t1.400000000000\t0.000287526293\n+-466000\t153.993902006927\t0.997480526600\t1.000000000000\t0.000331953099\n+-465000\t130.282565336089\t0.997421189028\t0.800000000000\t0.000287526293\n+-464000\t159.205319877438\t0.997931488108\t1.000000000000\t0.000281685915\n+-463000\t200.080959774898\t0.998171319733\t1.000000000000\t0.000312984350\n+-462000\t175.989753108966\t0.997447645086\t1.000000000000\t0.000384117157\n+-461000\t114.224052458199\t0.996401665926\t1.000000000000\t0.000352107394\n+-460000\t138.963759454412\t0.997361370093\t0.800000000000\t0.000317049082\n+-459000\t111.930590040859\t0.996761748733\t1.000000000000\t0.000310397703\n+-458000\t107.124635031856\t0.997129990391\t0.600000000000\t0.000263191385\n+-457000\t139.559368871572\t0.997725277767\t0.800000000000\t0.000271597990\n+-456000\t106.592655742084\t0.996971373730\t0.800000000000\t0.000276401764\n+-455000\t105.663670670915\t0.996933630757\t0.600000000000\t0.000277417947\n+-454000\t147.317172515235\t0.998101427721\t0.600000000000\t0.000243883909\n+-453000\t115.200337131843\t0.997742238764\t0.600000000000\t0.000224068342\n+-452000\t110.519882697522\t0.997936122327\t0.600000000000\t0.000195107127\n+-451000\t131.087083287591\t0.997969853868\t0.600000000000\t0.000227624982\n+-450000\t95.084412725215\t0.997080205489\t1.000000000000\t0.000242600310\n+-449000\t272.366855639715\t0.998970374155\t1.000000000000\t0.000239006231\n+-448000\t141.867214995723\t0.997803130066\t1.000000000000\t0.000265562479\n+-447000\t132.860415377154\t0.997595083877\t1.000000000000\t0.000275046853\n+-446000\t138.835886797127\t0.997236708437\t1.000000000000\t0.000332452276\n+-445000\t183.'..b'000000000\t0.000382823833\n+444000\t144.859828494596\t0.996903162520\t1.400000000000\t0.000384117157\n+445000\t181.127453398191\t0.997559041921\t1.400000000000\t0.000384117157\n+446000\t160.136119588827\t0.997366406029\t1.600000000000\t0.000359893553\n+447000\t153.653411583530\t0.997172630419\t1.200000000000\t0.000375581220\n+448000\t141.661704353510\t0.997163979271\t1.400000000000\t0.000345930071\n+449000\t124.591789049055\t0.996755483579\t1.400000000000\t0.000346179660\n+450000\t140.232016383950\t0.997067070092\t1.200000000000\t0.000352107394\n+451000\t136.018310879152\t0.997198243244\t1.000000000000\t0.000330767552\n+452000\t246.419596102391\t0.998452925685\t1.000000000000\t0.000325917588\n+453000\t133.267828865974\t0.997093260709\t1.000000000000\t0.000330767552\n+454000\t111.562325167782\t0.996668013833\t1.000000000000\t0.000325432591\n+455000\t136.735744503062\t0.997168723327\t1.000000000000\t0.000331395194\n+456000\t107.078418601392\t0.996473504625\t1.000000000000\t0.000323467080\n+457000\t129.245163973247\t0.997085556223\t1.000000000000\t0.000322468725\n+458000\t105.576577704040\t0.996545373786\t1.000000000000\t0.000312171404\n+459000\t127.868794891999\t0.997409239339\t0.800000000000\t0.000283033695\n+460000\t106.303153236011\t0.997074941993\t0.600000000000\t0.000266120383\n+461000\t126.838873099817\t0.997248182634\t0.800000000000\t0.000298757789\n+462000\t142.511212214533\t0.997018798351\t0.800000000000\t0.000363705134\n+463000\t110.665900101286\t0.996960672273\t0.800000000000\t0.000288455796\n+464000\t95.203501929856\t0.995744217821\t1.800000000000\t0.000347324326\n+465000\t137.363904547769\t0.997021971833\t1.800000000000\t0.000352107394\n+466000\t118.557203735630\t0.996290881001\t2.400000000000\t0.000376758591\n+467000\t104.819090517074\t0.995525960971\t2.800000000000\t0.000402408450\n+468000\t114.597405436879\t0.995690757202\t2.800000000000\t0.000423382467\n+469000\t129.271097317921\t0.997170331551\t1.400000000000\t0.000314762670\n+470000\t192.030681022578\t0.997984998366\t1.400000000000\t0.000330423361\n+471000\t148.206038001898\t0.997389657398\t1.000000000000\t0.000331090883\n+472000\t97.546089803069\t0.995843333605\t1.200000000000\t0.000347128098\n+473000\t95.851837787801\t0.995983996487\t1.200000000000\t0.000330056224\n+474000\t99.818854582017\t0.996557343281\t1.000000000000\t0.000294342649\n+475000\t148.008769541300\t0.997902427625\t0.600000000000\t0.000265562479\n+476000\t148.345768593866\t0.997933098098\t0.600000000000\t0.000262644210\n+477000\t123.596807612976\t0.997297923191\t0.600000000000\t0.000284531228\n+478000\t204.246569441019\t0.998287432528\t1.000000000000\t0.000298757789\n+479000\t132.924248355030\t0.997278666969\t0.800000000000\t0.000309427710\n+480000\t136.416688826340\t0.997425348906\t0.800000000000\t0.000301268359\n+481000\t118.446922382493\t0.997078476496\t1.000000000000\t0.000296247219\n+482000\t118.529156084928\t0.997003411887\t1.200000000000\t0.000304092749\n+483000\t190.680584441799\t0.998045921750\t1.000000000000\t0.000318674975\n+484000\t192.305361142196\t0.998005560472\t1.200000000000\t0.000328791641\n+485000\t171.354362305989\t0.997464844394\t1.200000000000\t0.000373052054\n+486000\t120.791244594597\t0.996480163123\t1.600000000000\t0.000364199971\n+487000\t230.056159698575\t0.998148828248\t1.600000000000\t0.000364199971\n+488000\t195.433175858843\t0.997957440166\t1.400000000000\t0.000341437473\n+489000\t126.632801152788\t0.996613466031\t1.600000000000\t0.000367303948\n+490000\t169.329748474940\t0.997643487089\t1.200000000000\t0.000341437473\n+491000\t136.266699963976\t0.997144438338\t1.000000000000\t0.000336264178\n+492000\t132.474984457930\t0.997281892907\t1.000000000000\t0.000312171404\n+493000\t143.910368825532\t0.997529065543\t1.200000000000\t0.000304092749\n+494000\t115.246894063938\t0.997187873361\t1.200000000000\t0.000278027657\n+495000\t170.264731113853\t0.997728931336\t1.200000000000\t0.000331682117\n+496000\t150.361715442266\t0.997070480810\t1.200000000000\t0.000380834105\n+497000\t132.494299731452\t0.996465234668\t1.400000000000\t0.000400817903\n+498000\t197.912620506313\t0.997679641998\t1.200000000000\t0.000393395349\n+499000\t142.734281997358\t0.996531092376\t1.000000000000\t0.000426796841\n+500000\t10.000000000000\tnan\t0.000000000000\t0.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/aggregate.hdf5 |
| b |
| Binary file test-data/cHi-C/chicAggregateStatistic/aggregate.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode.tar |
| b |
| Binary file test-data/cHi-C/chicAggregateStatistic/batch_mode.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 14274000 14279000 Eya1 673.0 -22000 7.00000 +chr1 14290000 14439000 Eya1 673.0 138000 523.00000 +chr1 14444000 14467000 Eya1 673.0 166000 10.00000 +chr1 14476000 14501000 Eya1 673.0 200000 30.25000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,5 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 19077000 19118000 Tfap2d 472.0 24000 349.00000 +chr1 19120000 19274000 Tfap2d 472.0 180000 86.00000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,5 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 4480000 4549000 Sox17 810.0 61000 640.00000 +chr1 4555000 4688000 Sox17 810.0 200000 73.18333 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 14274000 14279000 Eya1 832.0 -22000 0.00000 +chr1 14290000 14439000 Eya1 832.0 138000 645.00000 +chr1 14444000 14467000 Eya1 832.0 166000 25.00000 +chr1 14476000 14501000 Eya1 832.0 200000 26.15000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,5 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 19077000 19118000 Tfap2d 800.0 24000 534.00000 +chr1 19120000 19274000 Tfap2d 800.0 180000 214.00000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode/MB-E10-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,5 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 4480000 4549000 Sox17 978.0 61000 798.00000 +chr1 4555000 4688000 Sox17 978.0 200000 82.93333 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/batch_mode_file_names.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/batch_mode_file_names.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +FL-E13-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt +MB-E10-5_chr1_chr1_4487435_4487435_Sox17_aggregated.txt +FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt +MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt +FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt +MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_aggregated.txt \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/regular_mode/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/regular_mode/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 14274000 14279000 Eya1 673.0 -22000 7.00000 +chr1 14290000 14439000 Eya1 673.0 138000 523.00000 +chr1 14444000 14467000 Eya1 673.0 166000 10.00000 +chr1 14476000 14501000 Eya1 673.0 200000 30.25000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicAggregateStatistic/regular_mode/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicAggregateStatistic/regular_mode/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_aggregated.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# Aggregated file, created with HiCExplorer's chicAggregateStatistic version 3.4.3 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Sum of interactions Relative distance Raw target +chr1 14274000 14279000 Eya1 832.0 -22000 0.00000 +chr1 14290000 14439000 Eya1 832.0 138000 645.00000 +chr1 14444000 14467000 Eya1 832.0 166000 25.00000 +chr1 14476000 14501000 Eya1 832.0 200000 26.15000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2.tar |
| b |
| Binary file test-data/cHi-C/chicDifferentialTest/batch_mode_chi2.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14290000 14439000 Eya1 138000 673.00000 523.00000 832.00000 645.00000 0.97540 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,13 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14274000 14279000 Eya1 -22000 673.00000 7.00000 832.00000 0.00000 0.00335 +chr1 14444000 14467000 Eya1 166000 673.00000 10.00000 832.00000 25.00000 0.05733 +chr1 14476000 14501000 Eya1 200000 673.00000 30.25000 832.00000 26.15000 0.18635 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,14 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14274000 14279000 Eya1 -22000 673.00000 7.00000 832.00000 0.00000 0.00335 +chr1 14290000 14439000 Eya1 138000 673.00000 523.00000 832.00000 645.00000 0.97540 +chr1 14444000 14467000 Eya1 166000 673.00000 10.00000 832.00000 25.00000 0.05733 +chr1 14476000 14501000 Eya1 200000 673.00000 30.25000 832.00000 26.15000 0.18635 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,12 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 19077000 19118000 Tfap2d 24000 472.00000 349.00000 800.00000 534.00000 0.25577 +chr1 19120000 19274000 Tfap2d 180000 472.00000 86.00000 800.00000 214.00000 0.00599 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,12 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 19077000 19118000 Tfap2d 24000 472.00000 349.00000 800.00000 534.00000 0.25577 +chr1 19120000 19274000 Tfap2d 180000 472.00000 86.00000 800.00000 214.00000 0.00599 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,12 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 4480000 4549000 Sox17 61000 810.00000 640.00000 978.00000 798.00000 0.65155 +chr1 4555000 4688000 Sox17 200000 810.00000 73.18333 978.00000 82.93333 0.70460 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_chi2/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,12 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by chi2 test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 4480000 4549000 Sox17 61000 810.00000 640.00000 978.00000 798.00000 0.65155 +chr1 4555000 4688000 Sox17 200000 810.00000 73.18333 978.00000 82.93333 0.70460 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile.tar |
| b |
| Binary file test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14331000 14344000 Eya1 43000 673.00000 11.20000 832.00000 22.80000 0.23380 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14331000 14344000 Eya1 43000 673.00000 11.20000 832.00000 22.80000 0.23380 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 19122000 19131000 Tfap2d 37000 472.00000 10.20000 800.00000 15.80000 0.69206 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 19188000 19232000 Tfap2d 138000 472.00000 23.40000 800.00000 115.00000 0.00000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,12 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 19122000 19131000 Tfap2d 37000 472.00000 10.20000 800.00000 15.80000 0.69206 +chr1 19188000 19232000 Tfap2d 138000 472.00000 23.40000 800.00000 115.00000 0.00000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 4512000 4529000 Sox17 41000 810.00000 24.80000 978.00000 33.20000 0.69177 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,12 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 4534000 4544000 Sox17 56000 810.00000 7.00000 978.00000 13.20000 0.37830 +chr1 4585000 4590000 Sox17 102000 810.00000 8.00000 978.00000 2.40000 0.12513 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/batch_mode_fisher_outfile/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,13 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.3.1 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 4512000 4529000 Sox17 41000 810.00000 24.80000 978.00000 33.20000 0.69177 +chr1 4534000 4544000 Sox17 56000 810.00000 7.00000 978.00000 13.20000 0.37830 +chr1 4585000 4590000 Sox17 102000 810.00000 8.00000 978.00000 2.40000 0.12513 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/differential.hdf5 |
| b |
| Binary file test-data/cHi-C/chicDifferentialTest/differential.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14290000 14439000 Eya1 138000 673.00000 523.00000 832.00000 645.00000 1.00000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,13 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14274000 14279000 Eya1 -22000 673.00000 7.00000 832.00000 0.00000 0.00366 +chr1 14444000 14467000 Eya1 166000 673.00000 10.00000 832.00000 25.00000 0.06013 +chr1 14476000 14501000 Eya1 200000 673.00000 30.25000 832.00000 26.15000 0.22603 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/regular_mode_fisher/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_results.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,14 @@ +# Differential analysis result file of HiCExplorer's chicDifferentialTest version 3.4.3 +# This file contains the p-values computed by fisher test +# To test the smoothed (float) values they were rounded up to the next integer +# +# Alpha level 0.5 +# Degrees of freedom 1 +# +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Relative distance sum of interactions 1 target_1 raw sum of interactions 2 target_2 raw p-value +chr1 14274000 14279000 Eya1 -22000 673.00000 7.00000 832.00000 0.00000 0.00366 +chr1 14290000 14439000 Eya1 138000 673.00000 523.00000 832.00000 645.00000 1.00000 +chr1 14444000 14467000 Eya1 166000 673.00000 10.00000 832.00000 25.00000 0.06013 +chr1 14476000 14501000 Eya1 200000 673.00000 30.25000 832.00000 26.15000 0.22603 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicDifferentialTest/rejectedFilesList.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicDifferentialTest/rejectedFilesList.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_H0_rejected.txt +FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_H0_rejected.txt +FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_H0_rejected.txt \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/aggregate.tar.gz |
| b |
| Binary file test-data/cHi-C/chicExportData/aggregate.tar.gz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/oneGene/FL-E13-5_chr1_genes_Eya1.bigwig |
| b |
| Binary file test-data/cHi-C/chicExportData/oneGene/FL-E13-5_chr1_genes_Eya1.bigwig has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/oneGene/FL-E13-5_chr1_genes_Eya1_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicExportData/oneGene/FL-E13-5_chr1_genes_Eya1_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,402 @@\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+chr1\t14100000\t14101000\tEya1\t673.000000000000\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14101000\t14102000\tEya1\t673.000000000000\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14102000\t14103000\tEya1\t673.000000000000\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14103000\t14104000\tEya1\t673.000000000000\t-197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14104000\t14105000\tEya1\t673.000000000000\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14105000\t14106000\tEya1\t673.000000000000\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14106000\t14107000\tEya1\t673.000000000000\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14107000\t14108000\tEya1\t673.000000000000\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14108000\t14109000\tEya1\t673.000000000000\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14109000\t14110000\tEya1\t673.000000000000\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14110000\t14111000\tEya1\t673.000000000000\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14111000\t14112000\tEya1\t673.000000000000\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14112000\t14113000\tEya1\t673.000000000000\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14113000\t14114000\tEya1\t673.000000000000\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14114000\t14115000\tEya1\t673.000000000000\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14115000\t14116000\tEya1\t673.000000000000\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14116000\t14117000\tEya1\t673.000000000000\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14117000\t14118000\tEya1\t673.000000000000\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14118000\t14119000\tEya1\t673.000000000000\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14119000\t14120000\tEya1\t673.000000000000\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14120000\t14121000\tEya1\t673.000000000000\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14121000\t14122000\tEya1\t673.000000000000\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14122000\t14123000\tEya1\t673.000000000000\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14123000\t14124000\tEya1\t673.000000000000\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14124000\t14125000\tEya1\t673.000000000000\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14125000\t14126000\tEya1\t673.000000000000\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14126000\t14127000\tEya1\t673.000000000000\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14127000\t14128000\tEya1\t673.000000000000\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14128000\t14129000\tEya1\t673.000000000000\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14129000\t14130000\tEya1\t673.000000000000\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14130000\t14131000\tEya1\t673.000000000000\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14131000\t14132000\tEya1\t673.000000000000\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14132000\t14133000\tEya1\t673.000000000000\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14133000\t14134000\tEya1\t673.000000000000\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.0000000000'..b'.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14466000\t14467000\tEya1\t673.000000000000\t166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14467000\t14468000\tEya1\t673.000000000000\t167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14468000\t14469000\tEya1\t673.000000000000\t168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14469000\t14470000\tEya1\t673.000000000000\t169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14470000\t14471000\tEya1\t673.000000000000\t170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14471000\t14472000\tEya1\t673.000000000000\t171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14472000\t14473000\tEya1\t673.000000000000\t172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14473000\t14474000\tEya1\t673.000000000000\t173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14474000\t14475000\tEya1\t673.000000000000\t174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14475000\t14476000\tEya1\t673.000000000000\t175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14476000\t14477000\tEya1\t673.000000000000\t176000\t0.000297176820\t0.000000000000\t0.421231702882\t0.200000000000\n+chr1\t14477000\t14478000\tEya1\t673.000000000000\t177000\t0.000297176820\t0.000000000000\t0.449952046478\t0.200000000000\n+chr1\t14478000\t14479000\tEya1\t673.000000000000\t178000\t0.000594353640\t0.000000000000\t0.933862738240\t0.400000000000\n+chr1\t14479000\t14480000\tEya1\t673.000000000000\t179000\t0.000594353640\t0.000000000000\t0.951821637197\t0.400000000000\n+chr1\t14480000\t14481000\tEya1\t673.000000000000\t180000\t0.001485884101\t0.000000000000\t2.512422592521\t1.000000000000\n+chr1\t14481000\t14482000\tEya1\t673.000000000000\t181000\t0.001188707281\t0.000000000000\t2.020192860178\t0.800000000000\n+chr1\t14482000\t14483000\tEya1\t673.000000000000\t182000\t0.001188707281\t0.000000000000\t2.128805380321\t0.800000000000\n+chr1\t14483000\t14484000\tEya1\t673.000000000000\t183000\t0.001783060921\t0.000000000000\t3.093420317586\t1.200000000000\n+chr1\t14484000\t14485000\tEya1\t673.000000000000\t184000\t0.002080237741\t0.000000000000\t3.380127570538\t1.400000000000\n+chr1\t14485000\t14486000\tEya1\t673.000000000000\t185000\t0.001188707281\t0.000000000000\t1.903643274393\t0.800000000000\n+chr1\t14486000\t14487000\tEya1\t673.000000000000\t186000\t0.001188707281\t0.000000000000\t2.106158514412\t0.800000000000\n+chr1\t14487000\t14488000\tEya1\t673.000000000000\t187000\t0.001188707281\t0.000000000000\t2.140312436513\t0.800000000000\n+chr1\t14488000\t14489000\tEya1\t673.000000000000\t188000\t0.000594353640\t0.000000000000\t1.058710697124\t0.400000000000\n+chr1\t14489000\t14490000\tEya1\t673.000000000000\t189000\t0.000297176820\t0.000000000000\t0.575520059550\t0.200000000000\n+chr1\t14490000\t14491000\tEya1\t673.000000000000\t190000\t0.000297176820\t0.000000000000\t0.578885673960\t0.200000000000\n+chr1\t14491000\t14492000\tEya1\t673.000000000000\t191000\t0.002080237741\t0.000000000000\t3.849589730333\t1.400000000000\n+chr1\t14492000\t14493000\tEya1\t673.000000000000\t192000\t0.003268945022\t0.000000000000\t5.982878858272\t2.200000000000\n+chr1\t14493000\t14494000\tEya1\t673.000000000000\t193000\t0.002971768202\t0.000000000000\t5.892229182196\t2.000000000000\n+chr1\t14494000\t14495000\tEya1\t673.000000000000\t194000\t0.003268945022\t0.000000000000\t6.294126893758\t2.200000000000\n+chr1\t14495000\t14496000\tEya1\t673.000000000000\t195000\t0.003268945022\t0.000000000000\t6.680269651133\t2.200000000000\n+chr1\t14496000\t14497000\tEya1\t673.000000000000\t196000\t0.002971768202\t0.000000000000\t6.072972410121\t2.000000000000\n+chr1\t14497000\t14498000\tEya1\t673.000000000000\t197000\t0.002080237741\t0.000000000000\t3.937080406684\t1.400000000000\n+chr1\t14498000\t14499000\tEya1\t673.000000000000\t198000\t0.002971768202\t0.000000000000\t4.852424033528\t2.000000000000\n+chr1\t14499000\t14500000\tEya1\t673.000000000000\t199000\t0.003343239227\t0.000000000000\t5.830530441735\t2.250000000000\n+chr1\t14500000\t14501000\tEya1\t673.000000000000\t200000\t0.004457652303\t0.000000000000\t7.575723225668\t3.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/oneGene/MB-E10-5_chr1_genes_Eya1.bigwig |
| b |
| Binary file test-data/cHi-C/chicExportData/oneGene/MB-E10-5_chr1_genes_Eya1.bigwig has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/oneGene/MB-E10-5_chr1_genes_Eya1_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicExportData/oneGene/MB-E10-5_chr1_genes_Eya1_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,402 @@\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+chr1\t14100000\t14101000\tEya1\t832.000000000000\t-200000\t0.000400641026\t0.028365821799\t2.426424093120\t0.333333333333\n+chr1\t14101000\t14102000\tEya1\t832.000000000000\t-199000\t0.000300480769\t0.036748857670\t1.429857059822\t0.250000000000\n+chr1\t14102000\t14103000\tEya1\t832.000000000000\t-198000\t0.000240384615\t0.042850447268\t0.931069711724\t0.200000000000\n+chr1\t14103000\t14104000\tEya1\t832.000000000000\t-197000\t0.000240384615\t0.042850447268\t0.889688835341\t0.200000000000\n+chr1\t14104000\t14105000\tEya1\t832.000000000000\t-196000\t0.000240384615\t0.042850447268\t0.976487746811\t0.200000000000\n+chr1\t14105000\t14106000\tEya1\t832.000000000000\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14106000\t14107000\tEya1\t832.000000000000\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14107000\t14108000\tEya1\t832.000000000000\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14108000\t14109000\tEya1\t832.000000000000\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14109000\t14110000\tEya1\t832.000000000000\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14110000\t14111000\tEya1\t832.000000000000\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14111000\t14112000\tEya1\t832.000000000000\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14112000\t14113000\tEya1\t832.000000000000\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14113000\t14114000\tEya1\t832.000000000000\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14114000\t14115000\tEya1\t832.000000000000\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14115000\t14116000\tEya1\t832.000000000000\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14116000\t14117000\tEya1\t832.000000000000\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14117000\t14118000\tEya1\t832.000000000000\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14118000\t14119000\tEya1\t832.000000000000\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14119000\t14120000\tEya1\t832.000000000000\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14120000\t14121000\tEya1\t832.000000000000\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14121000\t14122000\tEya1\t832.000000000000\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14122000\t14123000\tEya1\t832.000000000000\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14123000\t14124000\tEya1\t832.000000000000\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14124000\t14125000\tEya1\t832.000000000000\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14125000\t14126000\tEya1\t832.000000000000\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14126000\t14127000\tEya1\t832.000000000000\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14127000\t14128000\tEya1\t832.000000000000\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14128000\t14129000\tEya1\t832.000000000000\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14129000\t14130000\tEya1\t832.000000000000\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14130000\t14131000\tEya1\t832.000000000000\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14131000\t14132000\tEya1\t832.000000000000\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14132000\t14133000\tEya1\t832.000000000000\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14133000\t14134000\tEya1\t832.000000000000\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.0000000000'..b'.000000000000\t1.106986108791\t0.600000000000\n+chr1\t14466000\t14467000\tEya1\t832.000000000000\t166000\t0.000240384615\t0.000000000000\t0.400359976274\t0.200000000000\n+chr1\t14467000\t14468000\tEya1\t832.000000000000\t167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14468000\t14469000\tEya1\t832.000000000000\t168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14469000\t14470000\tEya1\t832.000000000000\t169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14470000\t14471000\tEya1\t832.000000000000\t170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14471000\t14472000\tEya1\t832.000000000000\t171000\t0.000480769231\t0.000000000000\t0.659028767461\t0.400000000000\n+chr1\t14472000\t14473000\tEya1\t832.000000000000\t172000\t0.000480769231\t0.000000000000\t0.618316565296\t0.400000000000\n+chr1\t14473000\t14474000\tEya1\t832.000000000000\t173000\t0.000480769231\t0.000000000000\t0.630488151323\t0.400000000000\n+chr1\t14474000\t14475000\tEya1\t832.000000000000\t174000\t0.000480769231\t0.000000000000\t0.667266626197\t0.400000000000\n+chr1\t14475000\t14476000\tEya1\t832.000000000000\t175000\t0.000480769231\t0.000000000000\t0.690275820369\t0.400000000000\n+chr1\t14476000\t14477000\tEya1\t832.000000000000\t176000\t0.000240384615\t0.000000000000\t0.340731894279\t0.200000000000\n+chr1\t14477000\t14478000\tEya1\t832.000000000000\t177000\t0.000480769231\t0.000000000000\t0.727927229038\t0.400000000000\n+chr1\t14478000\t14479000\tEya1\t832.000000000000\t178000\t0.000480769231\t0.000000000000\t0.755396181293\t0.400000000000\n+chr1\t14479000\t14480000\tEya1\t832.000000000000\t179000\t0.000480769231\t0.000000000000\t0.769923031050\t0.400000000000\n+chr1\t14480000\t14481000\tEya1\t832.000000000000\t180000\t0.000480769231\t0.000000000000\t0.812913656138\t0.400000000000\n+chr1\t14481000\t14482000\tEya1\t832.000000000000\t181000\t0.000240384615\t0.000000000000\t0.408530587410\t0.200000000000\n+chr1\t14482000\t14483000\tEya1\t832.000000000000\t182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14483000\t14484000\tEya1\t832.000000000000\t183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14484000\t14485000\tEya1\t832.000000000000\t184000\t0.000240384615\t0.000000000000\t0.390595098725\t0.200000000000\n+chr1\t14485000\t14486000\tEya1\t832.000000000000\t185000\t0.000961538462\t0.000000000000\t1.539846062099\t0.800000000000\n+chr1\t14486000\t14487000\tEya1\t832.000000000000\t186000\t0.000961538462\t0.000000000000\t1.703659471393\t0.800000000000\n+chr1\t14487000\t14488000\tEya1\t832.000000000000\t187000\t0.000961538462\t0.000000000000\t1.731286381939\t0.800000000000\n+chr1\t14488000\t14489000\tEya1\t832.000000000000\t188000\t0.001201923077\t0.000000000000\t2.140962437394\t1.000000000000\n+chr1\t14489000\t14490000\tEya1\t832.000000000000\t189000\t0.001442307692\t0.000000000000\t2.793209135173\t1.200000000000\n+chr1\t14490000\t14491000\tEya1\t832.000000000000\t190000\t0.000721153846\t0.000000000000\t1.404771845823\t0.600000000000\n+chr1\t14491000\t14492000\tEya1\t832.000000000000\t191000\t0.001442307692\t0.000000000000\t2.669066506024\t1.200000000000\n+chr1\t14492000\t14493000\tEya1\t832.000000000000\t192000\t0.002403846154\t0.000000000000\t4.399560174407\t2.000000000000\n+chr1\t14493000\t14494000\tEya1\t832.000000000000\t193000\t0.002163461538\t0.000000000000\t4.289571172663\t1.800000000000\n+chr1\t14494000\t14495000\tEya1\t832.000000000000\t194000\t0.001682692308\t0.000000000000\t3.239907320421\t1.400000000000\n+chr1\t14495000\t14496000\tEya1\t832.000000000000\t195000\t0.002163461538\t0.000000000000\t4.421153111551\t1.800000000000\n+chr1\t14496000\t14497000\tEya1\t832.000000000000\t196000\t0.001682692308\t0.000000000000\t3.438674642317\t1.400000000000\n+chr1\t14497000\t14498000\tEya1\t832.000000000000\t197000\t0.001442307692\t0.000000000000\t2.729727108893\t1.200000000000\n+chr1\t14498000\t14499000\tEya1\t832.000000000000\t198000\t0.002644230769\t0.000000000000\t4.317607586564\t2.200000000000\n+chr1\t14499000\t14500000\tEya1\t832.000000000000\t199000\t0.003305288462\t0.000000000000\t5.764345200343\t2.750000000000\n+chr1\t14500000\t14501000\tEya1\t832.000000000000\t200000\t0.003605769231\t0.000000000000\t6.127958811148\t3.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/oneGene/background_FL-E13-5_chr1_genes_Eya1_interactions.bigwig |
| b |
| Binary file test-data/cHi-C/chicExportData/oneGene/background_FL-E13-5_chr1_genes_Eya1_interactions.bigwig has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicExportData/oneGene/background_MB-E10-5_chr1_genes_Eya1_interactions.bigwig |
| b |
| Binary file test-data/cHi-C/chicExportData/oneGene/background_MB-E10-5_chr1_genes_Eya1_interactions.bigwig has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicPlotViewpoint/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.png |
| b |
| Binary file test-data/cHi-C/chicPlotViewpoint/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicPlotViewpoint/batchMode/plots.tar |
| b |
| Binary file test-data/cHi-C/chicPlotViewpoint/batchMode/plots.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicPlotViewpoint/batchMode/two/Eya1_FL-E13-5_MB-E10-5_chr1_chr1_14300280.png |
| b |
| Binary file test-data/cHi-C/chicPlotViewpoint/batchMode/two/Eya1_FL-E13-5_MB-E10-5_chr1_chr1_14300280.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicPlotViewpoint/batchMode/two/Sox17_FL-E13-5_MB-E10-5_chr1_chr1_4487435.png |
| b |
| Binary file test-data/cHi-C/chicPlotViewpoint/batchMode/two/Sox17_FL-E13-5_MB-E10-5_chr1_chr1_4487435.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicPlotViewpoint/batchMode/two/Tfap2d_FL-E13-5_MB-E10-5_chr1_chr1_19093103.png |
| b |
| Binary file test-data/cHi-C/chicPlotViewpoint/batchMode/two/Tfap2d_FL-E13-5_MB-E10-5_chr1_chr1_19093103.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicQualityControl/histogram.png |
| b |
| Binary file test-data/cHi-C/chicQualityControl/histogram.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicQualityControl/new_referencepoints.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicQualityControl/new_referencepoints.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,35 @@ +chr1 4487435 4487435 Sox17 +chr1 14300280 14300280 Eya1 +chr1 19093103 19093103 Tfap2d +chr1 24202042 24202042 Col9a1 +chr1 33776741 33776741 Rab23 +chr1 38684089 38684089 Aff3 +chr1 42753991 42753991 Pou3f3 +chr1 52176282 52176282 Stat1 +chr1 53118507 53118507 Mstn +chr1 57028178 57028178 Satb2 +chr1 59821123 59821123 Bmpr2 +chr1 66991630 66991630 Myl1 +chr1 74648029 74648029 Stk36 +chr1 74818466 74818466 Wnt6 +chr1 75356867 75356867 Des +chr1 77511663 77511663 Epha4 +chr1 78193711 78193711 Pax3 +chr1 89102386 89102386 Chrng +chr1 93355905 93355905 Per2 +chr1 93698054 93698054 Twist2 +chr1 107677300 107677300 Tnfrsf11a +chr1 120950196 120950196 Gli2 +chr1 122499064 122499064 En1 +chr1 127808791 127808791 Lypd1 +chr1 135934092 135934092 Fmod +chr1 136186581 136186581 MyoG +chr1 164004278 164006270 mm712 +chr1 164147754 164147754 Dnm3os +chr1 165243781 165243781 Prrx1 +chr1 165333772 165333772 Gorab +chr1 169619689 169619689 Lmx1a +chr1 182823250 182823250 Lefty2 +chr1 182865170 182865170 Lefty1 +chr1 188529871 188529871 Tgfb2 +chr1 194979306 194979306 Irf6 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,47 @@ +# Created with chicQualityControl version 3.7.2 +# A sparsity of -1.0 indicates a faulty reference point e.g. no data for this reference point was in the matrix. +# Used Matrices 0_matrix.cool 1_matrix.cool +# Chromosome Start End Sparsity 0_matrix.cool Sparsity 1_matrix.cool +chr1 4487435 4487435 Sox17 0.14485514485514486 0.16083916083916083 +chr1 14300280 14300280 Eya1 0.14285714285714285 0.1938061938061938 +chr1 19093103 19093103 Tfap2d 0.1048951048951049 0.16683316683316685 +chr1 19198995 19198995 Tfap2b 0.01898101898101898 0.016983016983016984 +chr1 24202042 24202042 Col9a1 0.10589410589410589 0.12787212787212787 +chr1 33776741 33776741 Rab23 0.15484515484515485 0.2137862137862138 +chr1 38684089 38684089 Aff3 0.11588411588411589 0.11388611388611389 +chr1 42753991 42753991 Pou3f3 0.04995004995004995 0.07592407592407592 +chr1 52176282 52176282 Stat1 0.19080919080919082 0.22777222777222778 +chr1 52557292 52557292 Nab1 0.02197802197802198 0.024975024975024976 +chr1 53118507 53118507 Mstn 0.3116883116883117 0.37462537462537465 +chr1 57028178 57028178 Satb2 0.12287712287712288 0.14385614385614387 +chr1 59821123 59821123 Bmpr2 0.14085914085914086 0.16983016983016982 +chr1 66991630 66991630 Myl1 0.0919080919080919 0.09290709290709291 +chr1 74648029 74648029 Stk36 0.2777222777222777 0.3356643356643357 +chr1 74818466 74818466 Wnt6 0.29270729270729273 0.34165834165834164 +chr1 74838593 74838593 Wnt10a 0.00999000999000999 0.008991008991008992 +chr1 74998246 74998246 Ihh 0.008991008991008992 0.003996003996003996 +chr1 75356867 75356867 Des 0.18081918081918083 0.21678321678321677 +chr1 77511663 77511663 Epha4 0.15684315684315683 0.22277722277722278 +chr1 78193711 78193711 Pax3 0.24375624375624375 0.3096903096903097 +chr1 89102386 89102386 Chrng 0.16783216783216784 0.2217782217782218 +chr1 93355905 93355905 Per2 0.15384615384615385 0.16483516483516483 +chr1 93698054 93698054 Twist2 0.22277722277722278 0.23476523476523475 +chr1 94076918 94076918 Hdac4 0.0 0.0 +chr1 107677300 107677300 Tnfrsf11a 0.14685314685314685 0.16383616383616384 +chr1 120950196 120950196 Gli2 0.13986013986013987 0.2007992007992008 +chr1 122499064 122499064 En1 0.1008991008991009 0.11988011988011989 +chr1 127808791 127808791 Lypd1 0.18681318681318682 0.22977022977022976 +chr1 135934092 135934092 Fmod 0.3516483516483517 0.4145854145854146 +chr1 136186581 136186581 MyoG 0.07392607392607392 0.09090909090909091 +chr1 152313295 152313295 Prg4 0.00999000999000999 0.006993006993006993 +chr1 164004278 164006270 mm712 0.26173826173826176 0.2867132867132867 +chr1 164147754 164147754 Dnm3os 0.24875124875124874 0.24675324675324675 +chr1 165243781 165243781 Prrx1 0.36063936063936064 0.34065934065934067 +chr1 165333772 165333772 Gorab 0.36863136863136864 0.3956043956043956 +chr1 169619689 169619689 Lmx1a 0.11888111888111888 0.16783216783216784 +chr1 170362300 170362300 Pbx1 0.003996003996003996 0.002997002997002997 +chr1 180249284 180249284 Gm16586 0.0 0.0 +chr1 182823250 182823250 Lefty2 0.27472527472527475 0.33266733266733267 +chr1 182865170 182865170 Lefty1 0.25674325674325676 0.3086913086913087 +chr1 188529871 188529871 Tgfb2 0.13486513486513488 0.16583416583416583 +chr1 194979306 194979306 Irf6 0.12987012987012986 0.15284715284715283 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicQualityControl/new_referencepoints.bed_rejected_filter --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_rejected_filter Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +chr1 19198995 19198995 Tfap2b +chr1 52557292 52557292 Nab1 +chr1 74838593 74838593 Wnt10a +chr1 74998246 74998246 Ihh +chr1 94076918 94076918 Hdac4 +chr1 152313295 152313295 Prg4 +chr1 170362300 170362300 Pbx1 +chr1 180249284 180249284 Gm16586 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,13 @@ +# Created with chicQualityControl version 3.7.2 +# QC report for matrices: 0_matrix.cool 1_matrix.cool +#Sparsity threshold for rejection: sparsity <= 0.05 are rejected. + +Number of reference points: 43 +Number of accepted reference points: 35 +Number of rejected reference points: 8 +Number of faulty reference points: 0 + + +A faulty reference point is caused by the non-presence of the chromosome in one of the given matrices. +It can also be caused by the non-presence of valid Hi-C reads in a region, especially at the chromosome ends. +Please check the results of hicInfo to validate this for your data. |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicQualityControl/sparsity.png |
| b |
| Binary file test-data/cHi-C/chicQualityControl/sparsity.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_1/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_1/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14274000 14278000 Eya1 673.0 -26000 0.00832095096400000019 0.00283251424532149354 7.81112575817000021061 5.59999999999999964473 +chr1 14296000 14298000 Eya1 673.0 -3000 0.05794947993999999963 0.00000000000000000000 3.78135593591500018817 39.00000000000000000000 +chr1 14314000 14316000 Eya1 673.0 14000 0.01515601783000000008 0.00001082770154392509 3.19033393500999995496 10.19999999999999928946 +chr1 14317000 14319000 Eya1 673.0 17000 0.01456166419000000031 0.00008828123932902443 3.51709033858399999772 9.80000000000000071054 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_1_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_1_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.3.1 +# /tmp/output_target_8dty7wuh/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.bed +# Mode: x-fold background with 1.5 +# Used p-value: 0.2 +# +chr1 14274000 14278000 +chr1 14296000 14298000 +chr1 14314000 14319000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_2/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_2/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14274000 14279000 Eya1 673.0 -26000 0.01040118870499999980 0.00284160000885891328 9.15400589712000112286 7.00000000000000000000 +chr1 14285000 14303000 Eya1 673.0 -1000 0.50282317979099999672 0.00136523720299208673 11.07298757284899970443 338.40000000000003410605 +chr1 14304000 14308000 Eya1 673.0 4000 0.05438335809800000364 0.04630738638109899163 4.54925916911999994596 36.60000000000000142109 +chr1 14310000 14322000 Eya1 673.0 11000 0.08142644873500000380 0.00000295000019367997 16.90046348151199850918 54.79999999999999715783 +chr1 14361000 14395000 Eya1 673.0 61000 0.01872213967299999823 0.00000368259652272496 14.85031269307799917101 12.60000000000000142109 +chr1 14491000 14500000 Eya1 673.0 199000 0.02622585438099999874 0.00000000000000932587 49.39210160776001146132 17.64999999999999857891 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_2_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_2_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.2-dev +# targetFolder/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.bed +# Mode: loose p-value with 0.5 +# Used p-value: 0.2 +# +chr1 14274000 14279000 +chr1 14285000 14308000 +chr1 14310000 14322000 +chr1 14361000 14395000 +chr1 14491000 14500000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14274000 14278000 Eya1 673.0 -26000 0.00832095096400000019 0.00706210137955387562 7.81112575817000021061 5.59999999999999964473 +chr1 14296000 14298000 Eya1 673.0 -3000 0.05794947993999999963 0.10178166638720864690 3.78135593591500018817 39.00000000000000000000 +chr1 14314000 14316000 Eya1 673.0 14000 0.01515601783000000008 0.04060984916018672841 3.19033393500999995496 10.19999999999999928946 +chr1 14317000 14319000 Eya1 673.0 17000 0.01456166419000000031 0.02428991556274540109 3.51709033858399999772 9.80000000000000071054 +chr1 14480000 14488000 Eya1 673.0 184000 0.01129271916799999900 0.00000047362266253348 19.28508294646199772160 7.59999999999999875655 +chr1 14491000 14501000 Eya1 673.0 200000 0.03068350668399999828 0.00000000000000011102 56.96782483342801128856 20.64999999999999857891 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_3/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14295000 14298000 Eya1 832.0 -3000 0.05985576923100000002 0.05859241166597439765 4.79015312599299925012 49.79999999999999715783 +chr1 14426000 14432000 Eya1 832.0 130000 0.01081730769300000110 0.00000042985602988210 13.72351582211000042832 9.00000000000000000000 +chr1 14447000 14455000 Eya1 832.0 149000 0.01490384615199999950 0.00000000000003774758 22.36493893927400122834 12.39999999999999857891 +chr1 14460000 14465000 Eya1 832.0 162000 0.00913461538499999934 0.00000409886448993202 12.15366029908999934150 7.59999999999999964473 +chr1 14491000 14501000 Eya1 832.0 200000 0.02253605769199999720 0.00000000000000011102 41.39757163433100117800 18.75000000000000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_3_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.6 +# targetFolder/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt +# Mode: x-fold background with 1.5 +# Used p-value: 0.2 +# +chr1 14274000 14278000 +chr1 14296000 14298000 +chr1 14314000 14319000 +chr1 14480000 14488000 +chr1 14491000 14501000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_3_target/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3_target/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.6 +# targetFolder/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt +# Mode: x-fold background with 1.5 +# Used p-value: 0.2 +# +chr1 14295000 14298000 +chr1 14426000 14432000 +chr1 14447000 14455000 +chr1 14460000 14465000 +chr1 14491000 14501000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14274000 14278000 Eya1 673.0 -26000 0.00832095096400000019 0.00283251424532149354 7.81112575817000021061 5.59999999999999964473 +chr1 14296000 14298000 Eya1 673.0 -3000 0.05794947993999999963 0.00000000000000000000 3.78135593591500018817 39.00000000000000000000 +chr1 14314000 14316000 Eya1 673.0 14000 0.01515601783000000008 0.00001082770154392509 3.19033393500999995496 10.19999999999999928946 +chr1 14317000 14319000 Eya1 673.0 17000 0.01456166419000000031 0.00008828123932902443 3.51709033858399999772 9.80000000000000071054 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 19089000 19091000 Tfap2d 472.0 -3000 0.06101694915199999680 0.00000000000000000000 4.06818820852600016025 28.80000000000000071054 +chr1 19104000 19106000 Tfap2d 472.0 11000 0.02245762711799999950 0.00000021753312740014 3.62722049649999966903 10.59999999999999964473 +chr1 19109000 19114000 Tfap2d 472.0 18000 0.03940677966200000631 0.00000013791919284412 9.61739201792699915927 18.60000000000000142109 +chr1 19125000 19129000 Tfap2d 472.0 33000 0.01652542372999999884 0.19640940181488197869 7.28507499155399962376 7.79999999999999982236 +chr1 19227000 19233000 Tfap2d 472.0 137000 0.01186440677899999914 0.19195463066672580066 14.41899403645599875290 5.59999999999999964473 +chr1 19097000 19098000 Tfap2d 472.0 4000 0.02542372881399999895 0.00000000000002398082 1.62514514601700010843 12.00000000000000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_output_significant.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_output_significant.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 4509000 4515000 Sox17 810.0 23000 0.03432098765399999724 0.00000000034537894766 11.55191083898800030738 27.80000000000000071054 +chr1 4585000 4590000 Sox17 810.0 98000 0.00987654320999999807 0.08235176084316242484 8.98479195802099894763 8.00000000000000000000 +chr1 4484000 4485000 Sox17 810.0 -3000 0.03283950617300000069 0.00000000000000000000 1.52393745982299999575 26.60000000000000142109 +chr1 4499000 4500000 Sox17 810.0 12000 0.00987654320999999981 0.00000762924143549171 1.65903762227799989049 8.00000000000000000000 +chr1 4501000 4502000 Sox17 810.0 14000 0.00765432098799999957 0.00092861255189025105 1.57677828943600006895 6.20000000000000017764 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4_significant_files.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4_significant_files.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +FL-E13-5_chr1_chr1_4487435_4487435_Sox17_output_significant.txt +FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt +FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_output_significant.txt \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.3.1 +# /tmp/output_target_83sqy1lg/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.bed +# Mode: x-fold background with 1.5 +# Used p-value: 0.2 +# +chr1 14274000 14278000 +chr1 14296000 14298000 +chr1 14314000 14319000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,11 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.3.1 +# /tmp/output_target_83sqy1lg/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_target.bed +# Mode: x-fold background with 1.5 +# Used p-value: 0.2 +# +chr1 19089000 19091000 +chr1 19097000 19098000 +chr1 19104000 19106000 +chr1 19109000 19114000 +chr1 19125000 19129000 +chr1 19227000 19233000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4_target/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.3.1 +# /tmp/output_target_83sqy1lg/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_target.bed +# Mode: x-fold background with 1.5 +# Used p-value: 0.2 +# +chr1 4484000 4485000 +chr1 4499000 4502000 +chr1 4509000 4515000 +chr1 4585000 4590000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_4_target_list.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_4_target_list.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +FL-E13-5_chr1_chr1_4487435_4487435_Sox17_target.txt +FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt +FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# FL-E13-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 673.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14274000 14279000 Eya1 673.0 -26000 0.01040118870499999980 0.00132401127244263783 9.15400589712000112286 7.00000000000000000000 +chr1 14295000 14372000 Eya1 673.0 -1000 0.73997028231099992723 0.00000273538672768137 71.55022378473699973256 497.99999999999977262632 +chr1 14391000 14404000 Eya1 673.0 99000 0.01485884100899999803 0.00000099822649402004 12.71460890380599906280 10.00000000000000000000 +chr1 14405000 14431000 Eya1 673.0 126000 0.01485884100399999762 0.00000000706881753132 16.50018487636599928692 10.00000000000000532907 +chr1 14447000 14465000 Eya1 673.0 150000 0.01485884100799999760 0.00000000163091362637 20.98645213257099939597 10.00000000000000177636 +chr1 14476000 14501000 Eya1 673.0 200000 0.04494799405200000653 0.00000000000000011102 81.22289233532099217427 30.24999999999999644729 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# FL-E13-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 472.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 19088000 19093000 Tfap2d 472.0 -1000 0.25550847457600001089 0.10302839603584690309 8.11832748109999968733 120.59999999999999431566 +chr1 19094000 19118000 Tfap2d 472.0 1000 0.38686440678100009194 0.02157410618457478169 32.83428528261499934615 182.60000000000005115908 +chr1 19124000 19141000 Tfap2d 472.0 33000 0.04661016949300000184 0.00000000000393274302 22.39995010446000023308 22.00000000000000000000 +chr1 19143000 19150000 Tfap2d 472.0 52000 0.01059322034000000079 0.01905738347386221054 7.00310519245599927274 5.00000000000000000000 +chr1 19153000 19185000 Tfap2d 472.0 65000 0.03177966102100000800 0.00000000000269295697 24.96572554191800108470 14.99999999999999467093 +chr1 19186000 19210000 Tfap2d 472.0 108000 0.03177966101800000498 0.00000001275562755421 29.45424687062300250773 15.00000000000000000000 +chr1 19215000 19251000 Tfap2d 472.0 137000 0.04237288135900001140 0.00000000000112376775 56.40252329690899557590 19.99999999999999644729 +chr1 19252000 19264000 Tfap2d 472.0 163000 0.01694915254200000249 0.00000062934133893133 24.34766306781100198009 8.00000000000000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# FL-E13-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 810.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 4480000 4518000 Sox17 810.0 0 0.76049382715799984656 0.00000000602330973987 45.61581246979399395514 616.00000000000011368684 +chr1 4520000 4549000 Sox17 810.0 44000 0.02962962962900000247 0.00000000000001332268 17.03851209048299963911 24.00000000000000710543 +chr1 4557000 4578000 Sox17 810.0 75000 0.02592592592600001522 0.00000000000051858517 20.41795056780900097237 21.00000000000000355271 +chr1 4582000 4590000 Sox17 810.0 98000 0.01111111110999999860 0.00013740149648666655 9.96981855628800062163 9.00000000000000000000 +chr1 4592000 4634000 Sox17 810.0 116000 0.02839506171900002887 0.00000000000000011102 32.07927393785299585716 22.99999999999999289457 +chr1 4641000 4670000 Sox17 810.0 169000 0.01604938270900000546 0.00000000034415081895 23.33313824700799798961 12.99999999999999644729 +chr1 4671000 4688000 Sox17 810.0 191000 0.00763374485400000052 0.00000023615040700697 14.23725687309200438335 6.18333333333300050327 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,5 @@ +# MB-E10-5_chr1.cool chr1_14300280_14300280 14.10 Mbp 14.50 Mbp Eya1 Sum of interactions in fixate range: 832.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 14290000 14439000 Eya1 832.0 -1000 0.77524038462200028921 0.00000003592597119795 124.40376311550902244107 645.00000000000000000000 +chr1 14444000 14467000 Eya1 832.0 149000 0.03004807692100000191 0.00000000000000011102 43.43355247431500032462 25.00000000000000000000 +chr1 14484000 14501000 Eya1 832.0 200000 0.02902644230799999656 0.00000000000000011102 53.10190206687700253951 24.15000000000000213163 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +# MB-E10-5_chr1.cool chr1_19093103_19093103 18.89 Mbp 19.29 Mbp Tfap2d Sum of interactions in fixate range: 800.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 19077000 19083000 Tfap2d 800.0 -15000 0.01875000000000000278 0.00009145581248537482 9.05078678760400023862 15.00000000000000000000 +chr1 19084000 19118000 Tfap2d 800.0 0 0.64874999999999971578 0.00000005045883955113 44.36507725070399033029 518.99999999999988631316 +chr1 19120000 19249000 Tfap2d 800.0 105000 0.25625000000000008882 0.00000000000000011102 244.06286621622496113559 204.99999999999994315658 +chr1 19258000 19274000 Tfap2d 800.0 169000 0.01000000000000000021 0.00000152506365280747 14.62211731845800244400 8.00000000000000000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# MB-E10-5_chr1.cool chr1_4487435_4487435 4.29 Mbp 4.69 Mbp Sox17 Sum of interactions in fixate range: 978.0 +#Chromosome Start End Gene Sum of interactions Relative position Relative interactions p-value x-fold Raw target +chr1 4480000 4549000 Sox17 978.0 0 0.81595092025199977837 0.00000000000956168478 62.24249077437998067808 797.99999999999988631316 +chr1 4555000 4575000 Sox17 978.0 78000 0.02147239264300000727 0.00000000000005484502 17.04008783523400438753 21.00000000000000000000 +chr1 4577000 4591000 Sox17 978.0 93000 0.00715746421499999924 0.00023632212134716557 6.23881980673299985085 6.99999999999999911182 +chr1 4599000 4632000 Sox17 978.0 128000 0.01738241309700000112 0.00000000000000011102 20.66516512408400174650 16.99999999999999289457 +chr1 4634000 4662000 Sox17 978.0 169000 0.01635991820800000371 0.00000000000171385128 23.27331220218900398322 15.99999999999999644729 +chr1 4663000 4688000 Sox17 978.0 200000 0.02242672120499999977 0.00000000000000011102 39.41625174041998747043 21.93333333333300316781 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5_significant_files.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_significant_files.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +FL-E13-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt +MB-E10-5_chr1_chr1_4487435_4487435_Sox17_significant_interactions.txt +FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt +MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt +FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt +MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,9 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.6 +# targetFolder/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt +# Mode: loose p-value with 0.5 +# Used p-value: 0.2 +# +chr1 14274000 14279000 +chr1 14290000 14439000 +chr1 14444000 14467000 +chr1 14484000 14501000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.6 +# targetFolder/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt +# Mode: loose p-value with 0.5 +# Used p-value: 0.2 +# +chr1 19077000 19118000 +chr1 19120000 19274000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.6 +# targetFolder/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt +# Mode: loose p-value with 0.5 +# Used p-value: 0.2 +# +chr1 4480000 4549000 +chr1 4555000 4688000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/output_5_target_list.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target_list.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt +FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt +FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/significantFilesFolder.tar |
| b |
| Binary file test-data/cHi-C/chicSignificantInteractions/significantFilesFolder.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/significantInteractions_dual.hdf5 |
| b |
| Binary file test-data/cHi-C/chicSignificantInteractions/significantInteractions_dual.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/significantInteractions_single.hdf5 |
| b |
| Binary file test-data/cHi-C/chicSignificantInteractions/significantInteractions_single.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/targetFile_dual.hdf5 |
| b |
| Binary file test-data/cHi-C/chicSignificantInteractions/targetFile_dual.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/targetFile_single.hdf5 |
| b |
| Binary file test-data/cHi-C/chicSignificantInteractions/targetFile_single.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicSignificantInteractions/targetFolder.tar |
| b |
| Binary file test-data/cHi-C/chicSignificantInteractions/targetFolder.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/fileNames_one_matrix.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/fileNames_one_matrix.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt +FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt +FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/fileNames_two_matrices.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/fileNames_two_matrices.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt +MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt +FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt +MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt +FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt +MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1.tar |
| b |
| Binary file test-data/cHi-C/chicViewpoint/output_1.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.3.1\n+# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool\tchr1_14300280_14300280\t14.10 Mbp\t14.50 Mbp\tEya1\tSum of interactions in fixate range: 673.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t14100000\t14101000\tEya1\t673.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14101000\t14102000\tEya1\t673.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14102000\t14103000\tEya1\t673.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14103000\t14104000\tEya1\t673.0\t-197000\t0.000000000000\t0.999999994943\t0.000000000000\t0.000000000000\n+chr1\t14104000\t14105000\tEya1\t673.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14105000\t14106000\tEya1\t673.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14106000\t14107000\tEya1\t673.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14107000\t14108000\tEya1\t673.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14108000\t14109000\tEya1\t673.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14109000\t14110000\tEya1\t673.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14110000\t14111000\tEya1\t673.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14111000\t14112000\tEya1\t673.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14112000\t14113000\tEya1\t673.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14113000\t14114000\tEya1\t673.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14114000\t14115000\tEya1\t673.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14115000\t14116000\tEya1\t673.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14116000\t14117000\tEya1\t673.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14117000\t14118000\tEya1\t673.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14118000\t14119000\tEya1\t673.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14119000\t14120000\tEya1\t673.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14120000\t14121000\tEya1\t673.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14121000\t14122000\tEya1\t673.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14122000\t14123000\tEya1\t673.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14123000\t14124000\tEya1\t673.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14124000\t14125000\tEya1\t673.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14125000\t14126000\tEya1\t673.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14126000\t14127000\tEya1\t673.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14127000\t14128000\tEya1\t673.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14128000\t14129000\tEya1\t673.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14129000\t14130000\tEya1\t673.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14130000\t14131000\tEya1\t673.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14131000\t14132000\tEya1\t673.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14132000\t14133000\tEya1\t673.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14133000\t14134000\tEya1\t673.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14134000\t14135000\tEya1\t673.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t141350"..b'44260\t0.800000000000\n+chr1\t14462000\t14463000\tEya1\t673.0\t162000\t0.001188707281\t0.998003530647\t1.616154290340\t0.800000000000\n+chr1\t14463000\t14464000\tEya1\t673.0\t163000\t0.000594353640\t0.999352809734\t0.821489212945\t0.400000000000\n+chr1\t14464000\t14465000\tEya1\t673.0\t164000\t0.000594353640\t0.999664588125\t0.857051516792\t0.400000000000\n+chr1\t14465000\t14466000\tEya1\t673.0\t165000\t0.000000000000\t0.999918251505\t0.000000000000\t0.000000000000\n+chr1\t14466000\t14467000\tEya1\t673.0\t166000\t0.000000000000\t0.989304103068\t0.000000000000\t0.000000000000\n+chr1\t14467000\t14468000\tEya1\t673.0\t167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14468000\t14469000\tEya1\t673.0\t168000\t0.000000000000\t0.999999999417\t0.000000000000\t0.000000000000\n+chr1\t14469000\t14470000\tEya1\t673.0\t169000\t0.000000000000\t0.997208984795\t0.000000000000\t0.000000000000\n+chr1\t14470000\t14471000\tEya1\t673.0\t170000\t0.000000000000\t0.999780212263\t0.000000000000\t0.000000000000\n+chr1\t14471000\t14472000\tEya1\t673.0\t171000\t0.000000000000\t0.981475867334\t0.000000000000\t0.000000000000\n+chr1\t14472000\t14473000\tEya1\t673.0\t172000\t0.000000000000\t0.944032684304\t0.000000000000\t0.000000000000\n+chr1\t14473000\t14474000\tEya1\t673.0\t173000\t0.000000000000\t0.999936032663\t0.000000000000\t0.000000000000\n+chr1\t14474000\t14475000\tEya1\t673.0\t174000\t0.000000000000\t0.999594131731\t0.000000000000\t0.000000000000\n+chr1\t14475000\t14476000\tEya1\t673.0\t175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14476000\t14477000\tEya1\t673.0\t176000\t0.000297176820\t1.000000000000\t0.421231702882\t0.200000000000\n+chr1\t14477000\t14478000\tEya1\t673.0\t177000\t0.000297176820\t1.000000000000\t0.449952046478\t0.200000000000\n+chr1\t14478000\t14479000\tEya1\t673.0\t178000\t0.000594353640\t1.000000000000\t0.933862738240\t0.400000000000\n+chr1\t14479000\t14480000\tEya1\t673.0\t179000\t0.000594353640\t1.000000000000\t0.951821637197\t0.400000000000\n+chr1\t14480000\t14481000\tEya1\t673.0\t180000\t0.001485884101\t0.000000000000\t2.512422592521\t1.000000000000\n+chr1\t14481000\t14482000\tEya1\t673.0\t181000\t0.001188707281\t1.000000000000\t2.020192860178\t0.800000000000\n+chr1\t14482000\t14483000\tEya1\t673.0\t182000\t0.001188707281\t1.000000000000\t2.128805380321\t0.800000000000\n+chr1\t14483000\t14484000\tEya1\t673.0\t183000\t0.001783060921\t0.000000000000\t3.093420317586\t1.200000000000\n+chr1\t14484000\t14485000\tEya1\t673.0\t184000\t0.002080237741\t0.000000000000\t3.380127570538\t1.400000000000\n+chr1\t14485000\t14486000\tEya1\t673.0\t185000\t0.001188707281\t1.000000000000\t1.903643274393\t0.800000000000\n+chr1\t14486000\t14487000\tEya1\t673.0\t186000\t0.001188707281\t1.000000000000\t2.106158514412\t0.800000000000\n+chr1\t14487000\t14488000\tEya1\t673.0\t187000\t0.001188707281\t1.000000000000\t2.140312436513\t0.800000000000\n+chr1\t14488000\t14489000\tEya1\t673.0\t188000\t0.000594353640\t1.000000000000\t1.058710697124\t0.400000000000\n+chr1\t14489000\t14490000\tEya1\t673.0\t189000\t0.000297176820\t1.000000000000\t0.575520059550\t0.200000000000\n+chr1\t14490000\t14491000\tEya1\t673.0\t190000\t0.000297176820\t1.000000000000\t0.578885673960\t0.200000000000\n+chr1\t14491000\t14492000\tEya1\t673.0\t191000\t0.002080237741\t0.000000000000\t3.849589730333\t1.400000000000\n+chr1\t14492000\t14493000\tEya1\t673.0\t192000\t0.003268945022\t0.000000000000\t5.982878858272\t2.200000000000\n+chr1\t14493000\t14494000\tEya1\t673.0\t193000\t0.002971768202\t0.000000000000\t5.892229182196\t2.000000000000\n+chr1\t14494000\t14495000\tEya1\t673.0\t194000\t0.003268945022\t0.000000000000\t6.294126893758\t2.200000000000\n+chr1\t14495000\t14496000\tEya1\t673.0\t195000\t0.003268945022\t0.000000000000\t6.680269651133\t2.200000000000\n+chr1\t14496000\t14497000\tEya1\t673.0\t196000\t0.002971768202\t0.000000000000\t6.072972410121\t2.000000000000\n+chr1\t14497000\t14498000\tEya1\t673.0\t197000\t0.002080237741\t0.000000000000\t3.937080406684\t1.400000000000\n+chr1\t14498000\t14499000\tEya1\t673.0\t198000\t0.002971768202\t0.000000000000\t4.852424033528\t2.000000000000\n+chr1\t14499000\t14500000\tEya1\t673.0\t199000\t0.003343239227\t0.000000000000\t5.830530441735\t2.250000000000\n+chr1\t14500000\t14501000\tEya1\t673.0\t200000\t0.004457652303\t0.000000000000\t7.575723225668\t3.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.3.1\n+# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool\tchr1_19093103_19093103\t18.89 Mbp\t19.29 Mbp\tTfap2d\tSum of interactions in fixate range: 472.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t18893000\t18894000\tTfap2d\t472.0\t-200000\t0.001412429379\t1.000000000000\t8.554173074049\t0.666666666667\n+chr1\t18894000\t18895000\tTfap2d\t472.0\t-199000\t0.001059322034\t1.000000000000\t5.040852007510\t0.500000000000\n+chr1\t18895000\t18896000\tTfap2d\t472.0\t-198000\t0.000847457627\t1.000000000000\t3.282415254892\t0.400000000000\n+chr1\t18896000\t18897000\tTfap2d\t472.0\t-197000\t0.000847457627\t0.999999994943\t3.136530131373\t0.400000000000\n+chr1\t18897000\t18898000\tTfap2d\t472.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18898000\t18899000\tTfap2d\t472.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18899000\t18900000\tTfap2d\t472.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18900000\t18901000\tTfap2d\t472.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18901000\t18902000\tTfap2d\t472.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18902000\t18903000\tTfap2d\t472.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18903000\t18904000\tTfap2d\t472.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18904000\t18905000\tTfap2d\t472.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18905000\t18906000\tTfap2d\t472.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18906000\t18907000\tTfap2d\t472.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18907000\t18908000\tTfap2d\t472.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18908000\t18909000\tTfap2d\t472.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18909000\t18910000\tTfap2d\t472.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18910000\t18911000\tTfap2d\t472.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18911000\t18912000\tTfap2d\t472.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18912000\t18913000\tTfap2d\t472.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18913000\t18914000\tTfap2d\t472.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18914000\t18915000\tTfap2d\t472.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18915000\t18916000\tTfap2d\t472.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18916000\t18917000\tTfap2d\t472.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18917000\t18918000\tTfap2d\t472.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18918000\t18919000\tTfap2d\t472.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18919000\t18920000\tTfap2d\t472.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18920000\t18921000\tTfap2d\t472.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18921000\t18922000\tTfap2d\t472.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18922000\t18923000\tTfap2d\t472.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18923000\t18924000\tTfap2d\t472.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18924000\t18925000\tTfap2d\t472.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18925000\t18926000\tTfap2d\t472.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18926000\t18927000\tTfap2d\t472.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18927000\t18928000\tTfap2d\t472.0\t-166000\t"..b'4\t0.998003530647\t2.304389486014\t0.800000000000\n+chr1\t19256000\t19257000\tTfap2d\t472.0\t163000\t0.002542372881\t0.000647190266\t3.513954917238\t1.200000000000\n+chr1\t19257000\t19258000\tTfap2d\t472.0\t164000\t0.002118644068\t0.000335411875\t3.055061815685\t1.000000000000\n+chr1\t19258000\t19259000\tTfap2d\t472.0\t165000\t0.002118644068\t0.000081748495\t3.252162579500\t1.000000000000\n+chr1\t19259000\t19260000\tTfap2d\t472.0\t166000\t0.001694915254\t0.989304103068\t2.822877120847\t0.800000000000\n+chr1\t19260000\t19261000\tTfap2d\t472.0\t167000\t0.001694915254\t1.000000000000\t2.701317818024\t0.800000000000\n+chr1\t19261000\t19262000\tTfap2d\t472.0\t168000\t0.000847457627\t0.999999999417\t1.312966101957\t0.400000000000\n+chr1\t19262000\t19263000\tTfap2d\t472.0\t169000\t0.000423728814\t0.997208984795\t0.593041411154\t0.200000000000\n+chr1\t19263000\t19264000\tTfap2d\t472.0\t170000\t0.000423728814\t0.999780212263\t0.573755512251\t0.200000000000\n+chr1\t19264000\t19265000\tTfap2d\t472.0\t171000\t0.000000000000\t0.981475867334\t0.000000000000\t0.000000000000\n+chr1\t19265000\t19266000\tTfap2d\t472.0\t172000\t0.000000000000\t0.944032684304\t0.000000000000\t0.000000000000\n+chr1\t19266000\t19267000\tTfap2d\t472.0\t173000\t0.000000000000\t0.999936032663\t0.000000000000\t0.000000000000\n+chr1\t19267000\t19268000\tTfap2d\t472.0\t174000\t0.000000000000\t0.999594131731\t0.000000000000\t0.000000000000\n+chr1\t19268000\t19269000\tTfap2d\t472.0\t175000\t0.000423728814\t1.000000000000\t0.608378689139\t0.200000000000\n+chr1\t19269000\t19270000\tTfap2d\t472.0\t176000\t0.000423728814\t1.000000000000\t0.600612152627\t0.200000000000\n+chr1\t19270000\t19271000\tTfap2d\t472.0\t177000\t0.000423728814\t1.000000000000\t0.641562981525\t0.200000000000\n+chr1\t19271000\t19272000\tTfap2d\t472.0\t178000\t0.000423728814\t1.000000000000\t0.665772905546\t0.200000000000\n+chr1\t19272000\t19273000\tTfap2d\t472.0\t179000\t0.000423728814\t1.000000000000\t0.678576230756\t0.200000000000\n+chr1\t19273000\t19274000\tTfap2d\t472.0\t180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19274000\t19275000\tTfap2d\t472.0\t181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19275000\t19276000\tTfap2d\t472.0\t182000\t0.000423728814\t1.000000000000\t0.758837934828\t0.200000000000\n+chr1\t19276000\t19277000\tTfap2d\t472.0\t183000\t0.000423728814\t1.000000000000\t0.735124249200\t0.200000000000\n+chr1\t19277000\t19278000\tTfap2d\t472.0\t184000\t0.000423728814\t1.000000000000\t0.688506614701\t0.200000000000\n+chr1\t19278000\t19279000\tTfap2d\t472.0\t185000\t0.000423728814\t1.000000000000\t0.678576230756\t0.200000000000\n+chr1\t19279000\t19280000\tTfap2d\t472.0\t186000\t0.000423728814\t1.000000000000\t0.750765190784\t0.200000000000\n+chr1\t19280000\t19281000\tTfap2d\t472.0\t187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19281000\t19282000\tTfap2d\t472.0\t188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19282000\t19283000\tTfap2d\t472.0\t189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19283000\t19284000\tTfap2d\t472.0\t190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19284000\t19285000\tTfap2d\t472.0\t191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19285000\t19286000\tTfap2d\t472.0\t192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19286000\t19287000\tTfap2d\t472.0\t193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19287000\t19288000\tTfap2d\t472.0\t194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19288000\t19289000\tTfap2d\t472.0\t195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19289000\t19290000\tTfap2d\t472.0\t196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19290000\t19291000\tTfap2d\t472.0\t197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19291000\t19292000\tTfap2d\t472.0\t198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19292000\t19293000\tTfap2d\t472.0\t199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19293000\t19294000\tTfap2d\t472.0\t200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_1/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.3.1\n+# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/FL-E13-5_chr1.cool\tchr1_4487435_4487435\t4.29 Mbp\t4.69 Mbp\tSox17\tSum of interactions in fixate range: 810.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t4287000\t4288000\tSox17\t810.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4288000\t4289000\tSox17\t810.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4289000\t4290000\tSox17\t810.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4290000\t4291000\tSox17\t810.0\t-197000\t0.000000000000\t0.999999994943\t0.000000000000\t0.000000000000\n+chr1\t4291000\t4292000\tSox17\t810.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4292000\t4293000\tSox17\t810.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4293000\t4294000\tSox17\t810.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4294000\t4295000\tSox17\t810.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4295000\t4296000\tSox17\t810.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4296000\t4297000\tSox17\t810.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4297000\t4298000\tSox17\t810.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4298000\t4299000\tSox17\t810.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4299000\t4300000\tSox17\t810.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4300000\t4301000\tSox17\t810.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4301000\t4302000\tSox17\t810.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4302000\t4303000\tSox17\t810.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4303000\t4304000\tSox17\t810.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4304000\t4305000\tSox17\t810.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4305000\t4306000\tSox17\t810.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4306000\t4307000\tSox17\t810.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4307000\t4308000\tSox17\t810.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4308000\t4309000\tSox17\t810.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4309000\t4310000\tSox17\t810.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4310000\t4311000\tSox17\t810.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4311000\t4312000\tSox17\t810.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4312000\t4313000\tSox17\t810.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4313000\t4314000\tSox17\t810.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4314000\t4315000\tSox17\t810.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4315000\t4316000\tSox17\t810.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4316000\t4317000\tSox17\t810.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4317000\t4318000\tSox17\t810.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4318000\t4319000\tSox17\t810.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4319000\t4320000\tSox17\t810.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4320000\t4321000\tSox17\t810.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4321000\t4322000\tSox17\t810.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4322000\t4323000\tSox17\t810.0\t-165000\t0.000000"..b'0.000493827160\t1.000000000000\t0.593839639683\t0.400000000000\n+chr1\t4649000\t4650000\tSox17\t810.0\t162000\t0.000493827160\t0.998003530647\t0.671402368765\t0.400000000000\n+chr1\t4650000\t4651000\tSox17\t810.0\t163000\t0.000493827160\t0.999352809734\t0.682545975694\t0.400000000000\n+chr1\t4651000\t4652000\tSox17\t810.0\t164000\t0.000493827160\t0.999664588125\t0.712093420742\t0.400000000000\n+chr1\t4652000\t4653000\tSox17\t810.0\t165000\t0.000987654321\t0.999918251505\t1.516069864221\t0.800000000000\n+chr1\t4653000\t4654000\tSox17\t810.0\t166000\t0.000987654321\t0.989304103068\t1.644935803753\t0.800000000000\n+chr1\t4654000\t4655000\tSox17\t810.0\t167000\t0.000987654321\t1.000000000000\t1.574101247046\t0.800000000000\n+chr1\t4655000\t4656000\tSox17\t810.0\t168000\t0.001481481481\t0.000000000583\t2.295259259717\t1.200000000000\n+chr1\t4656000\t4657000\tSox17\t810.0\t169000\t0.001728395062\t0.002791015205\t2.419023237597\t1.400000000000\n+chr1\t4657000\t4658000\tSox17\t810.0\t170000\t0.001234567901\t0.000219787737\t1.671682727052\t1.000000000000\n+chr1\t4658000\t4659000\tSox17\t810.0\t171000\t0.000987654321\t0.981475867334\t1.353856628464\t0.800000000000\n+chr1\t4659000\t4660000\tSox17\t810.0\t172000\t0.000987654321\t0.944032684304\t1.270220697103\t0.800000000000\n+chr1\t4660000\t4661000\tSox17\t810.0\t173000\t0.000493827160\t0.999936032663\t0.647612520865\t0.400000000000\n+chr1\t4661000\t4662000\tSox17\t810.0\t174000\t0.000246913580\t0.999594131731\t0.342694958640\t0.200000000000\n+chr1\t4662000\t4663000\tSox17\t810.0\t175000\t0.000246913580\t1.000000000000\t0.354512026264\t0.200000000000\n+chr1\t4663000\t4664000\tSox17\t810.0\t176000\t0.000246913580\t1.000000000000\t0.349986340790\t0.200000000000\n+chr1\t4664000\t4665000\tSox17\t810.0\t177000\t0.000246913580\t1.000000000000\t0.373849046024\t0.200000000000\n+chr1\t4665000\t4666000\tSox17\t810.0\t178000\t0.000493827160\t1.000000000000\t0.775913114612\t0.400000000000\n+chr1\t4666000\t4667000\tSox17\t810.0\t179000\t0.000246913580\t1.000000000000\t0.395417260391\t0.200000000000\n+chr1\t4667000\t4668000\tSox17\t810.0\t180000\t0.000246913580\t1.000000000000\t0.417496396239\t0.200000000000\n+chr1\t4668000\t4669000\tSox17\t810.0\t181000\t0.000246913580\t1.000000000000\t0.419626479907\t0.200000000000\n+chr1\t4669000\t4670000\tSox17\t810.0\t182000\t0.000246913580\t1.000000000000\t0.442187043505\t0.200000000000\n+chr1\t4670000\t4671000\tSox17\t810.0\t183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4671000\t4672000\tSox17\t810.0\t184000\t0.000246913580\t1.000000000000\t0.401203854492\t0.200000000000\n+chr1\t4672000\t4673000\tSox17\t810.0\t185000\t0.000246913580\t1.000000000000\t0.395417260391\t0.200000000000\n+chr1\t4673000\t4674000\tSox17\t810.0\t186000\t0.000246913580\t1.000000000000\t0.437482925987\t0.200000000000\n+chr1\t4674000\t4675000\tSox17\t810.0\t187000\t0.000246913580\t1.000000000000\t0.444577243757\t0.200000000000\n+chr1\t4675000\t4676000\tSox17\t810.0\t188000\t0.000493827160\t1.000000000000\t0.879644813784\t0.400000000000\n+chr1\t4676000\t4677000\tSox17\t810.0\t189000\t0.000246913580\t1.000000000000\t0.478179012441\t0.200000000000\n+chr1\t4677000\t4678000\tSox17\t810.0\t190000\t0.000246913580\t1.000000000000\t0.480975380957\t0.200000000000\n+chr1\t4678000\t4679000\tSox17\t810.0\t191000\t0.000740740741\t1.000000000000\t1.370779835192\t0.600000000000\n+chr1\t4679000\t4680000\tSox17\t810.0\t192000\t0.000740740741\t1.000000000000\t1.355716320410\t0.600000000000\n+chr1\t4680000\t4681000\tSox17\t810.0\t193000\t0.000740740741\t1.000000000000\t1.468692681340\t0.600000000000\n+chr1\t4681000\t4682000\tSox17\t810.0\t194000\t0.000740740741\t1.000000000000\t1.426244915656\t0.600000000000\n+chr1\t4682000\t4683000\tSox17\t810.0\t195000\t0.000740740741\t1.000000000000\t1.513744604449\t0.600000000000\n+chr1\t4683000\t4684000\tSox17\t810.0\t196000\t0.000493827160\t1.000000000000\t1.009163069632\t0.400000000000\n+chr1\t4684000\t4685000\tSox17\t810.0\t197000\t0.000493827160\t1.000000000000\t0.934622615061\t0.400000000000\n+chr1\t4685000\t4686000\tSox17\t810.0\t198000\t0.000246913580\t1.000000000000\t0.403170540070\t0.200000000000\n+chr1\t4686000\t4687000\tSox17\t810.0\t199000\t0.000308641975\t1.000000000000\t0.538264332961\t0.250000000000\n+chr1\t4687000\t4688000\tSox17\t810.0\t200000\t0.000411522634\t1.000000000000\t0.699377466512\t0.333333333333\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.3.1\n+# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool\tchr1_14300280_14300280\t14.10 Mbp\t14.50 Mbp\tEya1\tSum of interactions in fixate range: 832.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t14100000\t14101000\tEya1\t832.0\t-200000\t0.000400641026\t1.000000000000\t2.426424093120\t0.333333333333\n+chr1\t14101000\t14102000\tEya1\t832.0\t-199000\t0.000300480769\t1.000000000000\t1.429857059822\t0.250000000000\n+chr1\t14102000\t14103000\tEya1\t832.0\t-198000\t0.000240384615\t1.000000000000\t0.931069711724\t0.200000000000\n+chr1\t14103000\t14104000\tEya1\t832.0\t-197000\t0.000240384615\t0.999999994943\t0.889688835341\t0.200000000000\n+chr1\t14104000\t14105000\tEya1\t832.0\t-196000\t0.000240384615\t1.000000000000\t0.976487746811\t0.200000000000\n+chr1\t14105000\t14106000\tEya1\t832.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14106000\t14107000\tEya1\t832.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14107000\t14108000\tEya1\t832.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14108000\t14109000\tEya1\t832.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14109000\t14110000\tEya1\t832.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14110000\t14111000\tEya1\t832.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14111000\t14112000\tEya1\t832.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14112000\t14113000\tEya1\t832.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14113000\t14114000\tEya1\t832.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14114000\t14115000\tEya1\t832.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14115000\t14116000\tEya1\t832.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14116000\t14117000\tEya1\t832.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14117000\t14118000\tEya1\t832.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14118000\t14119000\tEya1\t832.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14119000\t14120000\tEya1\t832.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14120000\t14121000\tEya1\t832.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14121000\t14122000\tEya1\t832.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14122000\t14123000\tEya1\t832.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14123000\t14124000\tEya1\t832.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14124000\t14125000\tEya1\t832.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14125000\t14126000\tEya1\t832.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14126000\t14127000\tEya1\t832.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14127000\t14128000\tEya1\t832.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14128000\t14129000\tEya1\t832.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14129000\t14130000\tEya1\t832.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14130000\t14131000\tEya1\t832.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14131000\t14132000\tEya1\t832.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14132000\t14133000\tEya1\t832.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14133000\t14134000\tEya1\t832.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14134000\t14135000\tEya1\t832.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t141350"..b'96844\t1.600000000000\n+chr1\t14462000\t14463000\tEya1\t832.0\t162000\t0.002163461538\t0.001996469353\t2.941420233350\t1.800000000000\n+chr1\t14463000\t14464000\tEya1\t832.0\t163000\t0.001682692308\t0.000647190266\t2.325742597467\t1.400000000000\n+chr1\t14464000\t14465000\tEya1\t832.0\t164000\t0.001682692308\t0.000335411875\t2.426424095919\t1.400000000000\n+chr1\t14465000\t14466000\tEya1\t832.0\t165000\t0.000721153846\t0.999918251505\t1.106986108791\t0.600000000000\n+chr1\t14466000\t14467000\tEya1\t832.0\t166000\t0.000240384615\t0.989304103068\t0.400359976274\t0.200000000000\n+chr1\t14467000\t14468000\tEya1\t832.0\t167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14468000\t14469000\tEya1\t832.0\t168000\t0.000000000000\t0.999999999417\t0.000000000000\t0.000000000000\n+chr1\t14469000\t14470000\tEya1\t832.0\t169000\t0.000000000000\t0.997208984795\t0.000000000000\t0.000000000000\n+chr1\t14470000\t14471000\tEya1\t832.0\t170000\t0.000000000000\t0.999780212263\t0.000000000000\t0.000000000000\n+chr1\t14471000\t14472000\tEya1\t832.0\t171000\t0.000480769231\t0.981475867334\t0.659028767461\t0.400000000000\n+chr1\t14472000\t14473000\tEya1\t832.0\t172000\t0.000480769231\t0.944032684304\t0.618316565296\t0.400000000000\n+chr1\t14473000\t14474000\tEya1\t832.0\t173000\t0.000480769231\t0.999936032663\t0.630488151323\t0.400000000000\n+chr1\t14474000\t14475000\tEya1\t832.0\t174000\t0.000480769231\t0.999594131731\t0.667266626197\t0.400000000000\n+chr1\t14475000\t14476000\tEya1\t832.0\t175000\t0.000480769231\t1.000000000000\t0.690275820369\t0.400000000000\n+chr1\t14476000\t14477000\tEya1\t832.0\t176000\t0.000240384615\t1.000000000000\t0.340731894279\t0.200000000000\n+chr1\t14477000\t14478000\tEya1\t832.0\t177000\t0.000480769231\t1.000000000000\t0.727927229038\t0.400000000000\n+chr1\t14478000\t14479000\tEya1\t832.0\t178000\t0.000480769231\t1.000000000000\t0.755396181293\t0.400000000000\n+chr1\t14479000\t14480000\tEya1\t832.0\t179000\t0.000480769231\t1.000000000000\t0.769923031050\t0.400000000000\n+chr1\t14480000\t14481000\tEya1\t832.0\t180000\t0.000480769231\t1.000000000000\t0.812913656138\t0.400000000000\n+chr1\t14481000\t14482000\tEya1\t832.0\t181000\t0.000240384615\t1.000000000000\t0.408530587410\t0.200000000000\n+chr1\t14482000\t14483000\tEya1\t832.0\t182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14483000\t14484000\tEya1\t832.0\t183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14484000\t14485000\tEya1\t832.0\t184000\t0.000240384615\t1.000000000000\t0.390595098725\t0.200000000000\n+chr1\t14485000\t14486000\tEya1\t832.0\t185000\t0.000961538462\t1.000000000000\t1.539846062099\t0.800000000000\n+chr1\t14486000\t14487000\tEya1\t832.0\t186000\t0.000961538462\t1.000000000000\t1.703659471393\t0.800000000000\n+chr1\t14487000\t14488000\tEya1\t832.0\t187000\t0.000961538462\t1.000000000000\t1.731286381939\t0.800000000000\n+chr1\t14488000\t14489000\tEya1\t832.0\t188000\t0.001201923077\t0.000000000000\t2.140962437394\t1.000000000000\n+chr1\t14489000\t14490000\tEya1\t832.0\t189000\t0.001442307692\t0.000000000000\t2.793209135173\t1.200000000000\n+chr1\t14490000\t14491000\tEya1\t832.0\t190000\t0.000721153846\t1.000000000000\t1.404771845823\t0.600000000000\n+chr1\t14491000\t14492000\tEya1\t832.0\t191000\t0.001442307692\t0.000000000000\t2.669066506024\t1.200000000000\n+chr1\t14492000\t14493000\tEya1\t832.0\t192000\t0.002403846154\t0.000000000000\t4.399560174407\t2.000000000000\n+chr1\t14493000\t14494000\tEya1\t832.0\t193000\t0.002163461538\t0.000000000000\t4.289571172663\t1.800000000000\n+chr1\t14494000\t14495000\tEya1\t832.0\t194000\t0.001682692308\t0.000000000000\t3.239907320421\t1.400000000000\n+chr1\t14495000\t14496000\tEya1\t832.0\t195000\t0.002163461538\t0.000000000000\t4.421153111551\t1.800000000000\n+chr1\t14496000\t14497000\tEya1\t832.0\t196000\t0.001682692308\t0.000000000000\t3.438674642317\t1.400000000000\n+chr1\t14497000\t14498000\tEya1\t832.0\t197000\t0.001442307692\t0.000000000000\t2.729727108893\t1.200000000000\n+chr1\t14498000\t14499000\tEya1\t832.0\t198000\t0.002644230769\t0.000000000000\t4.317607586564\t2.200000000000\n+chr1\t14499000\t14500000\tEya1\t832.0\t199000\t0.003305288462\t0.000000000000\t5.764345200343\t2.750000000000\n+chr1\t14500000\t14501000\tEya1\t832.0\t200000\t0.003605769231\t0.000000000000\t6.127958811148\t3.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.3.1\n+# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool\tchr1_19093103_19093103\t18.89 Mbp\t19.29 Mbp\tTfap2d\tSum of interactions in fixate range: 800.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t18893000\t18894000\tTfap2d\t800.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18894000\t18895000\tTfap2d\t800.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18895000\t18896000\tTfap2d\t800.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18896000\t18897000\tTfap2d\t800.0\t-197000\t0.000000000000\t0.999999994943\t0.000000000000\t0.000000000000\n+chr1\t18897000\t18898000\tTfap2d\t800.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18898000\t18899000\tTfap2d\t800.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18899000\t18900000\tTfap2d\t800.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18900000\t18901000\tTfap2d\t800.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18901000\t18902000\tTfap2d\t800.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18902000\t18903000\tTfap2d\t800.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18903000\t18904000\tTfap2d\t800.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18904000\t18905000\tTfap2d\t800.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18905000\t18906000\tTfap2d\t800.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18906000\t18907000\tTfap2d\t800.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18907000\t18908000\tTfap2d\t800.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18908000\t18909000\tTfap2d\t800.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18909000\t18910000\tTfap2d\t800.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18910000\t18911000\tTfap2d\t800.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18911000\t18912000\tTfap2d\t800.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18912000\t18913000\tTfap2d\t800.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18913000\t18914000\tTfap2d\t800.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18914000\t18915000\tTfap2d\t800.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18915000\t18916000\tTfap2d\t800.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18916000\t18917000\tTfap2d\t800.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18917000\t18918000\tTfap2d\t800.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18918000\t18919000\tTfap2d\t800.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18919000\t18920000\tTfap2d\t800.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18920000\t18921000\tTfap2d\t800.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18921000\t18922000\tTfap2d\t800.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18922000\t18923000\tTfap2d\t800.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18923000\t18924000\tTfap2d\t800.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18924000\t18925000\tTfap2d\t800.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18925000\t18926000\tTfap2d\t800.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18926000\t18927000\tTfap2d\t800.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18927000\t18928000\tTfap2d\t800.0\t-166000\t"..b'0\t0.998003530647\t0.000000000000\t0.000000000000\n+chr1\t19256000\t19257000\tTfap2d\t800.0\t163000\t0.000000000000\t0.999352809734\t0.000000000000\t0.000000000000\n+chr1\t19257000\t19258000\tTfap2d\t800.0\t164000\t0.000000000000\t0.999664588125\t0.000000000000\t0.000000000000\n+chr1\t19258000\t19259000\tTfap2d\t800.0\t165000\t0.000250000000\t0.999918251505\t0.383755184381\t0.200000000000\n+chr1\t19259000\t19260000\tTfap2d\t800.0\t166000\t0.000500000000\t0.989304103068\t0.832748750650\t0.400000000000\n+chr1\t19260000\t19261000\tTfap2d\t800.0\t167000\t0.000750000000\t1.000000000000\t1.195333134476\t0.600000000000\n+chr1\t19261000\t19262000\tTfap2d\t800.0\t168000\t0.000750000000\t0.999999999417\t1.161975000232\t0.600000000000\n+chr1\t19262000\t19263000\tTfap2d\t800.0\t169000\t0.001000000000\t0.997208984795\t1.399577730324\t0.800000000000\n+chr1\t19263000\t19264000\tTfap2d\t800.0\t170000\t0.000750000000\t0.999780212263\t1.015547256684\t0.600000000000\n+chr1\t19264000\t19265000\tTfap2d\t800.0\t171000\t0.000750000000\t0.981475867334\t1.028084877240\t0.600000000000\n+chr1\t19265000\t19266000\tTfap2d\t800.0\t172000\t0.000500000000\t0.944032684304\t0.643049227908\t0.400000000000\n+chr1\t19266000\t19267000\tTfap2d\t800.0\t173000\t0.000750000000\t0.999936032663\t0.983561516064\t0.600000000000\n+chr1\t19267000\t19268000\tTfap2d\t800.0\t174000\t0.000500000000\t0.999594131731\t0.693957291245\t0.400000000000\n+chr1\t19268000\t19269000\tTfap2d\t800.0\t175000\t0.000750000000\t1.000000000000\t1.076830279776\t0.600000000000\n+chr1\t19269000\t19270000\tTfap2d\t800.0\t176000\t0.000750000000\t1.000000000000\t1.063083510150\t0.600000000000\n+chr1\t19270000\t19271000\tTfap2d\t800.0\t177000\t0.000750000000\t1.000000000000\t1.135566477299\t0.600000000000\n+chr1\t19271000\t19272000\tTfap2d\t800.0\t178000\t0.000500000000\t1.000000000000\t0.785612028545\t0.400000000000\n+chr1\t19272000\t19273000\tTfap2d\t800.0\t179000\t0.000500000000\t1.000000000000\t0.800719952292\t0.400000000000\n+chr1\t19273000\t19274000\tTfap2d\t800.0\t180000\t0.000250000000\t1.000000000000\t0.422715101192\t0.200000000000\n+chr1\t19274000\t19275000\tTfap2d\t800.0\t181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19275000\t19276000\tTfap2d\t800.0\t182000\t0.000250000000\t1.000000000000\t0.447714381549\t0.200000000000\n+chr1\t19276000\t19277000\tTfap2d\t800.0\t183000\t0.000250000000\t1.000000000000\t0.433723307028\t0.200000000000\n+chr1\t19277000\t19278000\tTfap2d\t800.0\t184000\t0.000750000000\t1.000000000000\t1.218656708021\t0.600000000000\n+chr1\t19278000\t19279000\tTfap2d\t800.0\t185000\t0.000750000000\t1.000000000000\t1.201079928437\t0.600000000000\n+chr1\t19279000\t19280000\tTfap2d\t800.0\t186000\t0.000750000000\t1.000000000000\t1.328854387687\t0.600000000000\n+chr1\t19280000\t19281000\tTfap2d\t800.0\t187000\t0.000500000000\t1.000000000000\t0.900268918608\t0.400000000000\n+chr1\t19281000\t19282000\tTfap2d\t800.0\t188000\t0.000500000000\t1.000000000000\t0.890640373956\t0.400000000000\n+chr1\t19282000\t19283000\tTfap2d\t800.0\t189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19283000\t19284000\tTfap2d\t800.0\t190000\t0.000250000000\t1.000000000000\t0.486987573219\t0.200000000000\n+chr1\t19284000\t19285000\tTfap2d\t800.0\t191000\t0.000250000000\t1.000000000000\t0.462638194377\t0.200000000000\n+chr1\t19285000\t19286000\tTfap2d\t800.0\t192000\t0.000250000000\t1.000000000000\t0.457554258138\t0.200000000000\n+chr1\t19286000\t19287000\tTfap2d\t800.0\t193000\t0.000500000000\t1.000000000000\t0.991367559904\t0.400000000000\n+chr1\t19287000\t19288000\tTfap2d\t800.0\t194000\t0.000500000000\t1.000000000000\t0.962715318068\t0.400000000000\n+chr1\t19288000\t19289000\tTfap2d\t800.0\t195000\t0.000250000000\t1.000000000000\t0.510888804001\t0.200000000000\n+chr1\t19289000\t19290000\tTfap2d\t800.0\t196000\t0.000250000000\t1.000000000000\t0.510888804001\t0.200000000000\n+chr1\t19290000\t19291000\tTfap2d\t800.0\t197000\t0.000250000000\t1.000000000000\t0.473152698875\t0.200000000000\n+chr1\t19291000\t19292000\tTfap2d\t800.0\t198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19292000\t19293000\tTfap2d\t800.0\t199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19293000\t19294000\tTfap2d\t800.0\t200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_1/MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.3.1\n+# /home/wolffj/src/HiCExplorer/hicexplorer/test/test_data/cHi-C/MB-E10-5_chr1.cool\tchr1_4487435_4487435\t4.29 Mbp\t4.69 Mbp\tSox17\tSum of interactions in fixate range: 978.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t4287000\t4288000\tSox17\t978.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4288000\t4289000\tSox17\t978.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4289000\t4290000\tSox17\t978.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4290000\t4291000\tSox17\t978.0\t-197000\t0.000000000000\t0.999999994943\t0.000000000000\t0.000000000000\n+chr1\t4291000\t4292000\tSox17\t978.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4292000\t4293000\tSox17\t978.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4293000\t4294000\tSox17\t978.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4294000\t4295000\tSox17\t978.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4295000\t4296000\tSox17\t978.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4296000\t4297000\tSox17\t978.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4297000\t4298000\tSox17\t978.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4298000\t4299000\tSox17\t978.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4299000\t4300000\tSox17\t978.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4300000\t4301000\tSox17\t978.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4301000\t4302000\tSox17\t978.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4302000\t4303000\tSox17\t978.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4303000\t4304000\tSox17\t978.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4304000\t4305000\tSox17\t978.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4305000\t4306000\tSox17\t978.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4306000\t4307000\tSox17\t978.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4307000\t4308000\tSox17\t978.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4308000\t4309000\tSox17\t978.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4309000\t4310000\tSox17\t978.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4310000\t4311000\tSox17\t978.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4311000\t4312000\tSox17\t978.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4312000\t4313000\tSox17\t978.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4313000\t4314000\tSox17\t978.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4314000\t4315000\tSox17\t978.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4315000\t4316000\tSox17\t978.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4316000\t4317000\tSox17\t978.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4317000\t4318000\tSox17\t978.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4318000\t4319000\tSox17\t978.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4319000\t4320000\tSox17\t978.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4320000\t4321000\tSox17\t978.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4321000\t4322000\tSox17\t978.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4322000\t4323000\tSox17\t978.0\t-165000\t0.000000"..b'0.000613496933\t1.000000000000\t0.737745564637\t0.600000000000\n+chr1\t4649000\t4650000\tSox17\t978.0\t162000\t0.000408997955\t0.998003530647\t0.556069446523\t0.400000000000\n+chr1\t4650000\t4651000\tSox17\t978.0\t163000\t0.000204498978\t0.999352809734\t0.282649407113\t0.200000000000\n+chr1\t4651000\t4652000\tSox17\t978.0\t164000\t0.000204498978\t0.999664588125\t0.294885312271\t0.200000000000\n+chr1\t4652000\t4653000\tSox17\t978.0\t165000\t0.000204498978\t0.999918251505\t0.313910171273\t0.200000000000\n+chr1\t4653000\t4654000\tSox17\t978.0\t166000\t0.000817995910\t0.989304103068\t1.362370144213\t0.800000000000\n+chr1\t4654000\t4655000\tSox17\t978.0\t167000\t0.000817995910\t1.000000000000\t1.303703486817\t0.800000000000\n+chr1\t4655000\t4656000\tSox17\t978.0\t168000\t0.000817995910\t0.999999999417\t1.267321063648\t0.800000000000\n+chr1\t4656000\t4657000\tSox17\t978.0\t169000\t0.001226993865\t0.002791015205\t1.717273288741\t1.200000000000\n+chr1\t4657000\t4658000\tSox17\t978.0\t170000\t0.001226993865\t0.000219787737\t1.661427004800\t1.200000000000\n+chr1\t4658000\t4659000\tSox17\t978.0\t171000\t0.000613496933\t0.981475867334\t0.840969224736\t0.600000000000\n+chr1\t4659000\t4660000\tSox17\t978.0\t172000\t0.000613496933\t0.944032684304\t0.789017457556\t0.600000000000\n+chr1\t4660000\t4661000\tSox17\t978.0\t173000\t0.000613496933\t0.999936032663\t0.804549297394\t0.600000000000\n+chr1\t4661000\t4662000\tSox17\t978.0\t174000\t0.000204498978\t0.999594131731\t0.283827112984\t0.200000000000\n+chr1\t4662000\t4663000\tSox17\t978.0\t175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4663000\t4664000\tSox17\t978.0\t176000\t0.000408997955\t1.000000000000\t0.579731975542\t0.400000000000\n+chr1\t4664000\t4665000\tSox17\t978.0\t177000\t0.001022494888\t0.000000000000\t1.548147889979\t1.000000000000\n+chr1\t4665000\t4666000\tSox17\t978.0\t178000\t0.001022494888\t0.000000000000\t1.606568565531\t1.000000000000\n+chr1\t4666000\t4667000\tSox17\t978.0\t179000\t0.001226993865\t0.000000000000\t1.964956938139\t1.200000000000\n+chr1\t4667000\t4668000\tSox17\t978.0\t180000\t0.001226993865\t0.000000000000\t2.074675343272\t1.200000000000\n+chr1\t4668000\t4669000\tSox17\t978.0\t181000\t0.001022494888\t0.000000000000\t1.737717018021\t1.000000000000\n+chr1\t4669000\t4670000\tSox17\t978.0\t182000\t0.000408997955\t1.000000000000\t0.732457065928\t0.400000000000\n+chr1\t4670000\t4671000\tSox17\t978.0\t183000\t0.000613496933\t1.000000000000\t1.064351673689\t0.600000000000\n+chr1\t4671000\t4672000\tSox17\t978.0\t184000\t0.000817995910\t1.000000000000\t1.329141603840\t0.800000000000\n+chr1\t4672000\t4673000\tSox17\t978.0\t185000\t0.000817995910\t1.000000000000\t1.309971292093\t0.800000000000\n+chr1\t4673000\t4674000\tSox17\t978.0\t186000\t0.000817995910\t1.000000000000\t1.449329938854\t0.800000000000\n+chr1\t4674000\t4675000\tSox17\t978.0\t187000\t0.001226993865\t0.000000000000\t2.209248880021\t1.200000000000\n+chr1\t4675000\t4676000\tSox17\t978.0\t188000\t0.001022494888\t0.000000000000\t1.821350457987\t1.000000000000\n+chr1\t4676000\t4677000\tSox17\t978.0\t189000\t0.000817995910\t1.000000000000\t1.584151329559\t0.800000000000\n+chr1\t4677000\t4678000\tSox17\t978.0\t190000\t0.001022494888\t0.000000000000\t1.991769215618\t1.000000000000\n+chr1\t4678000\t4679000\tSox17\t978.0\t191000\t0.001226993865\t0.000000000000\t2.270616904920\t1.200000000000\n+chr1\t4679000\t4680000\tSox17\t978.0\t192000\t0.000817995910\t1.000000000000\t1.497110047078\t0.800000000000\n+chr1\t4680000\t4681000\tSox17\t978.0\t193000\t0.001022494888\t0.000000000000\t2.027336523322\t1.000000000000\n+chr1\t4681000\t4682000\tSox17\t978.0\t194000\t0.000817995910\t1.000000000000\t1.574994385387\t0.800000000000\n+chr1\t4682000\t4683000\tSox17\t978.0\t195000\t0.000613496933\t1.000000000000\t1.253714856445\t0.600000000000\n+chr1\t4683000\t4684000\tSox17\t978.0\t196000\t0.000204498978\t1.000000000000\t0.417904952148\t0.200000000000\n+chr1\t4684000\t4685000\tSox17\t978.0\t197000\t0.001022494888\t0.000000000000\t1.935184862473\t1.000000000000\n+chr1\t4685000\t4686000\tSox17\t978.0\t198000\t0.000817995910\t1.000000000000\t1.335657003912\t0.800000000000\n+chr1\t4686000\t4687000\tSox17\t978.0\t199000\t0.001022494888\t0.000000000000\t1.783206992633\t1.000000000000\n+chr1\t4687000\t4688000\tSox17\t978.0\t200000\t0.001363326517\t0.000000000000\t2.316956024029\t1.333333333333\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.6\n+# FL-E13-5_chr1.cool\tchr1_14300280_14300280\t14.10 Mbp\t14.50 Mbp\tEya1\tSum of interactions in fixate range: 673.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t14100000\t14101000\tEya1\t673.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14101000\t14102000\tEya1\t673.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14102000\t14103000\tEya1\t673.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14103000\t14104000\tEya1\t673.0\t-197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14104000\t14105000\tEya1\t673.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14105000\t14106000\tEya1\t673.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14106000\t14107000\tEya1\t673.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14107000\t14108000\tEya1\t673.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14108000\t14109000\tEya1\t673.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14109000\t14110000\tEya1\t673.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14110000\t14111000\tEya1\t673.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14111000\t14112000\tEya1\t673.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14112000\t14113000\tEya1\t673.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14113000\t14114000\tEya1\t673.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14114000\t14115000\tEya1\t673.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14115000\t14116000\tEya1\t673.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14116000\t14117000\tEya1\t673.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14117000\t14118000\tEya1\t673.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14118000\t14119000\tEya1\t673.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14119000\t14120000\tEya1\t673.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14120000\t14121000\tEya1\t673.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14121000\t14122000\tEya1\t673.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14122000\t14123000\tEya1\t673.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14123000\t14124000\tEya1\t673.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14124000\t14125000\tEya1\t673.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14125000\t14126000\tEya1\t673.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14126000\t14127000\tEya1\t673.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14127000\t14128000\tEya1\t673.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14128000\t14129000\tEya1\t673.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14129000\t14130000\tEya1\t673.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14130000\t14131000\tEya1\t673.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14131000\t14132000\tEya1\t673.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14132000\t14133000\tEya1\t673.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14133000\t14134000\tEya1\t673.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14134000\t14135000\tEya1\t673.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14135000\t14136000\tEya1\t673.0\t-165000\t0.000000000000\t1.000000000000\t0.0"..b'08665\t0.800000000000\n+chr1\t14462000\t14463000\tEya1\t673.0\t162000\t0.001188707281\t1.000000000000\t1.591533108618\t0.800000000000\n+chr1\t14463000\t14464000\tEya1\t673.0\t163000\t0.000594353640\t1.000000000000\t0.780082358626\t0.400000000000\n+chr1\t14464000\t14465000\tEya1\t673.0\t164000\t0.000594353640\t1.000000000000\t0.813852157891\t0.400000000000\n+chr1\t14465000\t14466000\tEya1\t673.0\t165000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14466000\t14467000\tEya1\t673.0\t166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14467000\t14468000\tEya1\t673.0\t167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14468000\t14469000\tEya1\t673.0\t168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14469000\t14470000\tEya1\t673.0\t169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14470000\t14471000\tEya1\t673.0\t170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14471000\t14472000\tEya1\t673.0\t171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14472000\t14473000\tEya1\t673.0\t172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14473000\t14474000\tEya1\t673.0\t173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14474000\t14475000\tEya1\t673.0\t174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14475000\t14476000\tEya1\t673.0\t175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14476000\t14477000\tEya1\t673.0\t176000\t0.000297176820\t1.000000000000\t0.377777473345\t0.200000000000\n+chr1\t14477000\t14478000\tEya1\t673.0\t177000\t0.000297176820\t1.000000000000\t0.387710125250\t0.200000000000\n+chr1\t14478000\t14479000\tEya1\t673.0\t178000\t0.000594353640\t1.000000000000\t0.804681391196\t0.400000000000\n+chr1\t14479000\t14480000\tEya1\t673.0\t179000\t0.000594353640\t1.000000000000\t0.853631790099\t0.400000000000\n+chr1\t14480000\t14481000\tEya1\t673.0\t180000\t0.001485884101\t1.000000000000\t2.209060071856\t1.000000000000\n+chr1\t14481000\t14482000\tEya1\t673.0\t181000\t0.001188707281\t1.000000000000\t1.740739337114\t0.800000000000\n+chr1\t14482000\t14483000\tEya1\t673.0\t182000\t0.001188707281\t1.000000000000\t1.946633238000\t0.800000000000\n+chr1\t14483000\t14484000\tEya1\t673.0\t183000\t0.001783060921\t1.000000000000\t2.611109005672\t1.200000000000\n+chr1\t14484000\t14485000\tEya1\t673.0\t184000\t0.002080237741\t1.000000000000\t3.150313631272\t1.400000000000\n+chr1\t14485000\t14486000\tEya1\t673.0\t185000\t0.001188707281\t1.000000000000\t1.707263580199\t0.800000000000\n+chr1\t14486000\t14487000\tEya1\t673.0\t186000\t0.001188707281\t1.000000000000\t1.814813352082\t0.800000000000\n+chr1\t14487000\t14488000\tEya1\t673.0\t187000\t0.001188707281\t1.000000000000\t1.806605148755\t0.800000000000\n+chr1\t14488000\t14489000\tEya1\t673.0\t188000\t0.000594353640\t1.000000000000\t0.912259118375\t0.400000000000\n+chr1\t14489000\t14490000\tEya1\t673.0\t189000\t0.000297176820\t1.000000000000\t0.475667144687\t0.200000000000\n+chr1\t14490000\t14491000\tEya1\t673.0\t190000\t0.000297176820\t1.000000000000\t0.488628585681\t0.200000000000\n+chr1\t14491000\t14492000\tEya1\t673.0\t191000\t0.002080237741\t1.000000000000\t3.452466352281\t1.400000000000\n+chr1\t14492000\t14493000\tEya1\t673.0\t192000\t0.003268945022\t1.000000000000\t5.155266499539\t2.200000000000\n+chr1\t14493000\t14494000\tEya1\t673.0\t193000\t0.002971768202\t1.000000000000\t4.559079214345\t2.000000000000\n+chr1\t14494000\t14495000\tEya1\t673.0\t194000\t0.003268945022\t1.000000000000\t5.423459548891\t2.200000000000\n+chr1\t14495000\t14496000\tEya1\t673.0\t195000\t0.003268945022\t1.000000000000\t5.638713926662\t2.200000000000\n+chr1\t14496000\t14497000\tEya1\t673.0\t196000\t0.002971768202\t1.000000000000\t5.019309740274\t2.000000000000\n+chr1\t14497000\t14498000\tEya1\t673.0\t197000\t0.002080237741\t1.000000000000\t3.323229640928\t1.400000000000\n+chr1\t14498000\t14499000\tEya1\t673.0\t198000\t0.002971768202\t1.000000000000\t4.181187622141\t2.000000000000\n+chr1\t14499000\t14500000\tEya1\t673.0\t199000\t0.003343239227\t1.000000000000\t4.818931539295\t2.250000000000\n+chr1\t14500000\t14501000\tEya1\t673.0\t200000\t0.004457652303\t1.000000000000\t6.794212212290\t3.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.4.3\n+# FL-E13-5_chr1.cool\tchr1_19093103_19093103\t18.89 Mbp\t19.29 Mbp\tTfap2d\tSum of interactions in fixate range: 472.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t18893000\t18894000\tTfap2d\t472.0\t-200000\t0.001412429379\t0.009736859396\t8.554173074049\t0.666666666667\n+chr1\t18894000\t18895000\tTfap2d\t472.0\t-199000\t0.001059322034\t0.016726462474\t5.040852007510\t0.500000000000\n+chr1\t18895000\t18896000\tTfap2d\t472.0\t-198000\t0.000847457627\t0.023000625561\t3.282415254892\t0.400000000000\n+chr1\t18896000\t18897000\tTfap2d\t472.0\t-197000\t0.000847457627\t0.023000625561\t3.136530131373\t0.400000000000\n+chr1\t18897000\t18898000\tTfap2d\t472.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18898000\t18899000\tTfap2d\t472.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18899000\t18900000\tTfap2d\t472.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18900000\t18901000\tTfap2d\t472.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18901000\t18902000\tTfap2d\t472.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18902000\t18903000\tTfap2d\t472.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18903000\t18904000\tTfap2d\t472.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18904000\t18905000\tTfap2d\t472.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18905000\t18906000\tTfap2d\t472.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18906000\t18907000\tTfap2d\t472.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18907000\t18908000\tTfap2d\t472.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18908000\t18909000\tTfap2d\t472.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18909000\t18910000\tTfap2d\t472.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18910000\t18911000\tTfap2d\t472.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18911000\t18912000\tTfap2d\t472.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18912000\t18913000\tTfap2d\t472.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18913000\t18914000\tTfap2d\t472.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18914000\t18915000\tTfap2d\t472.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18915000\t18916000\tTfap2d\t472.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18916000\t18917000\tTfap2d\t472.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18917000\t18918000\tTfap2d\t472.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18918000\t18919000\tTfap2d\t472.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18919000\t18920000\tTfap2d\t472.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18920000\t18921000\tTfap2d\t472.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18921000\t18922000\tTfap2d\t472.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18922000\t18923000\tTfap2d\t472.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18923000\t18924000\tTfap2d\t472.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18924000\t18925000\tTfap2d\t472.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18925000\t18926000\tTfap2d\t472.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18926000\t18927000\tTfap2d\t472.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18927000\t18928000\tTfap2d\t472.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+c"..b'4\t0.000000000000\t2.304389486014\t0.800000000000\n+chr1\t19256000\t19257000\tTfap2d\t472.0\t163000\t0.002542372881\t0.000000000000\t3.513954917238\t1.200000000000\n+chr1\t19257000\t19258000\tTfap2d\t472.0\t164000\t0.002118644068\t0.000000000000\t3.055061815685\t1.000000000000\n+chr1\t19258000\t19259000\tTfap2d\t472.0\t165000\t0.002118644068\t0.000000000000\t3.252162579500\t1.000000000000\n+chr1\t19259000\t19260000\tTfap2d\t472.0\t166000\t0.001694915254\t0.000000000000\t2.822877120847\t0.800000000000\n+chr1\t19260000\t19261000\tTfap2d\t472.0\t167000\t0.001694915254\t0.000000000000\t2.701317818024\t0.800000000000\n+chr1\t19261000\t19262000\tTfap2d\t472.0\t168000\t0.000847457627\t0.000000000000\t1.312966101957\t0.400000000000\n+chr1\t19262000\t19263000\tTfap2d\t472.0\t169000\t0.000423728814\t0.000000000000\t0.593041411154\t0.200000000000\n+chr1\t19263000\t19264000\tTfap2d\t472.0\t170000\t0.000423728814\t0.000000000000\t0.573755512251\t0.200000000000\n+chr1\t19264000\t19265000\tTfap2d\t472.0\t171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19265000\t19266000\tTfap2d\t472.0\t172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19266000\t19267000\tTfap2d\t472.0\t173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19267000\t19268000\tTfap2d\t472.0\t174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19268000\t19269000\tTfap2d\t472.0\t175000\t0.000423728814\t0.000000000000\t0.608378689139\t0.200000000000\n+chr1\t19269000\t19270000\tTfap2d\t472.0\t176000\t0.000423728814\t0.000000000000\t0.600612152627\t0.200000000000\n+chr1\t19270000\t19271000\tTfap2d\t472.0\t177000\t0.000423728814\t0.000000000000\t0.641562981525\t0.200000000000\n+chr1\t19271000\t19272000\tTfap2d\t472.0\t178000\t0.000423728814\t0.000000000000\t0.665772905546\t0.200000000000\n+chr1\t19272000\t19273000\tTfap2d\t472.0\t179000\t0.000423728814\t0.000000000000\t0.678576230756\t0.200000000000\n+chr1\t19273000\t19274000\tTfap2d\t472.0\t180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19274000\t19275000\tTfap2d\t472.0\t181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19275000\t19276000\tTfap2d\t472.0\t182000\t0.000423728814\t0.000000000000\t0.758837934828\t0.200000000000\n+chr1\t19276000\t19277000\tTfap2d\t472.0\t183000\t0.000423728814\t0.000000000000\t0.735124249200\t0.200000000000\n+chr1\t19277000\t19278000\tTfap2d\t472.0\t184000\t0.000423728814\t0.000000000000\t0.688506614701\t0.200000000000\n+chr1\t19278000\t19279000\tTfap2d\t472.0\t185000\t0.000423728814\t0.000000000000\t0.678576230756\t0.200000000000\n+chr1\t19279000\t19280000\tTfap2d\t472.0\t186000\t0.000423728814\t0.000000000000\t0.750765190784\t0.200000000000\n+chr1\t19280000\t19281000\tTfap2d\t472.0\t187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19281000\t19282000\tTfap2d\t472.0\t188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19282000\t19283000\tTfap2d\t472.0\t189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19283000\t19284000\tTfap2d\t472.0\t190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19284000\t19285000\tTfap2d\t472.0\t191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19285000\t19286000\tTfap2d\t472.0\t192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19286000\t19287000\tTfap2d\t472.0\t193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19287000\t19288000\tTfap2d\t472.0\t194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19288000\t19289000\tTfap2d\t472.0\t195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19289000\t19290000\tTfap2d\t472.0\t196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19290000\t19291000\tTfap2d\t472.0\t197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19291000\t19292000\tTfap2d\t472.0\t198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19292000\t19293000\tTfap2d\t472.0\t199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19293000\t19294000\tTfap2d\t472.0\t200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.6\n+# FL-E13-5_chr1.cool\tchr1_4487435_4487435\t4.29 Mbp\t4.69 Mbp\tSox17\tSum of interactions in fixate range: 810.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t4287000\t4288000\tSox17\t810.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4288000\t4289000\tSox17\t810.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4289000\t4290000\tSox17\t810.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4290000\t4291000\tSox17\t810.0\t-197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4291000\t4292000\tSox17\t810.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4292000\t4293000\tSox17\t810.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4293000\t4294000\tSox17\t810.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4294000\t4295000\tSox17\t810.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4295000\t4296000\tSox17\t810.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4296000\t4297000\tSox17\t810.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4297000\t4298000\tSox17\t810.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4298000\t4299000\tSox17\t810.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4299000\t4300000\tSox17\t810.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4300000\t4301000\tSox17\t810.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4301000\t4302000\tSox17\t810.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4302000\t4303000\tSox17\t810.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4303000\t4304000\tSox17\t810.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4304000\t4305000\tSox17\t810.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4305000\t4306000\tSox17\t810.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4306000\t4307000\tSox17\t810.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4307000\t4308000\tSox17\t810.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4308000\t4309000\tSox17\t810.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4309000\t4310000\tSox17\t810.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4310000\t4311000\tSox17\t810.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4311000\t4312000\tSox17\t810.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4312000\t4313000\tSox17\t810.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4313000\t4314000\tSox17\t810.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4314000\t4315000\tSox17\t810.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4315000\t4316000\tSox17\t810.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4316000\t4317000\tSox17\t810.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4317000\t4318000\tSox17\t810.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4318000\t4319000\tSox17\t810.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4319000\t4320000\tSox17\t810.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4320000\t4321000\tSox17\t810.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4321000\t4322000\tSox17\t810.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4322000\t4323000\tSox17\t810.0\t-165000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t432300"..b'0.000493827160\t1.000000000000\t0.626563751378\t0.400000000000\n+chr1\t4649000\t4650000\tSox17\t810.0\t162000\t0.000493827160\t1.000000000000\t0.661173939568\t0.400000000000\n+chr1\t4650000\t4651000\tSox17\t810.0\t163000\t0.000493827160\t1.000000000000\t0.648142502908\t0.400000000000\n+chr1\t4651000\t4652000\tSox17\t810.0\t164000\t0.000493827160\t1.000000000000\t0.676200620074\t0.400000000000\n+chr1\t4652000\t4653000\tSox17\t810.0\t165000\t0.000987654321\t1.000000000000\t1.386332452855\t0.800000000000\n+chr1\t4653000\t4654000\tSox17\t810.0\t166000\t0.000987654321\t1.000000000000\t1.243833473318\t0.800000000000\n+chr1\t4654000\t4655000\tSox17\t810.0\t167000\t0.000987654321\t1.000000000000\t1.245632721235\t0.800000000000\n+chr1\t4655000\t4656000\tSox17\t810.0\t168000\t0.001481481481\t1.000000000000\t1.897031040397\t1.200000000000\n+chr1\t4656000\t4657000\tSox17\t810.0\t169000\t0.001728395062\t1.000000000000\t1.999321931024\t1.400000000000\n+chr1\t4657000\t4658000\tSox17\t810.0\t170000\t0.001234567901\t1.000000000000\t1.499232064694\t1.000000000000\n+chr1\t4658000\t4659000\tSox17\t810.0\t171000\t0.000987654321\t1.000000000000\t1.166577475118\t0.800000000000\n+chr1\t4659000\t4660000\tSox17\t810.0\t172000\t0.000987654321\t1.000000000000\t1.116847870700\t0.800000000000\n+chr1\t4660000\t4661000\tSox17\t810.0\t173000\t0.000493827160\t1.000000000000\t0.614969855182\t0.400000000000\n+chr1\t4661000\t4662000\tSox17\t810.0\t174000\t0.000246913580\t1.000000000000\t0.301316248499\t0.200000000000\n+chr1\t4662000\t4663000\tSox17\t810.0\t175000\t0.000246913580\t1.000000000000\t0.317940593070\t0.200000000000\n+chr1\t4663000\t4664000\tSox17\t810.0\t176000\t0.000246913580\t1.000000000000\t0.313881777236\t0.200000000000\n+chr1\t4664000\t4665000\tSox17\t810.0\t177000\t0.000246913580\t1.000000000000\t0.322134462090\t0.200000000000\n+chr1\t4665000\t4666000\tSox17\t810.0\t178000\t0.000493827160\t1.000000000000\t0.668580958364\t0.400000000000\n+chr1\t4666000\t4667000\tSox17\t810.0\t179000\t0.000246913580\t1.000000000000\t0.354626046134\t0.200000000000\n+chr1\t4667000\t4668000\tSox17\t810.0\t180000\t0.000246913580\t1.000000000000\t0.367085784780\t0.200000000000\n+chr1\t4668000\t4669000\tSox17\t810.0\t181000\t0.000246913580\t1.000000000000\t0.361579498110\t0.200000000000\n+chr1\t4669000\t4670000\tSox17\t810.0\t182000\t0.000246913580\t1.000000000000\t0.404346965794\t0.200000000000\n+chr1\t4670000\t4671000\tSox17\t810.0\t183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4671000\t4672000\tSox17\t810.0\t184000\t0.000246913580\t1.000000000000\t0.373926115317\t0.200000000000\n+chr1\t4672000\t4673000\tSox17\t810.0\t185000\t0.000246913580\t1.000000000000\t0.354626046134\t0.200000000000\n+chr1\t4673000\t4674000\tSox17\t810.0\t186000\t0.000246913580\t1.000000000000\t0.376965859861\t0.200000000000\n+chr1\t4674000\t4675000\tSox17\t810.0\t187000\t0.000246913580\t1.000000000000\t0.375260884294\t0.200000000000\n+chr1\t4675000\t4676000\tSox17\t810.0\t188000\t0.000493827160\t1.000000000000\t0.757963440329\t0.400000000000\n+chr1\t4676000\t4677000\tSox17\t810.0\t189000\t0.000246913580\t1.000000000000\t0.395214800462\t0.200000000000\n+chr1\t4677000\t4678000\tSox17\t810.0\t190000\t0.000246913580\t1.000000000000\t0.405983997732\t0.200000000000\n+chr1\t4678000\t4679000\tSox17\t810.0\t191000\t0.000740740741\t1.000000000000\t1.229370293696\t0.600000000000\n+chr1\t4679000\t4680000\tSox17\t810.0\t192000\t0.000740740741\t1.000000000000\t1.168179917236\t0.600000000000\n+chr1\t4680000\t4681000\tSox17\t810.0\t193000\t0.000740740741\t1.000000000000\t1.136392707872\t0.600000000000\n+chr1\t4681000\t4682000\tSox17\t810.0\t194000\t0.000740740741\t1.000000000000\t1.228952281617\t0.600000000000\n+chr1\t4682000\t4683000\tSox17\t810.0\t195000\t0.000740740741\t1.000000000000\t1.277728778668\t0.600000000000\n+chr1\t4683000\t4684000\tSox17\t810.0\t196000\t0.000493827160\t1.000000000000\t0.834072951902\t0.400000000000\n+chr1\t4684000\t4685000\tSox17\t810.0\t197000\t0.000493827160\t1.000000000000\t0.788900722520\t0.400000000000\n+chr1\t4685000\t4686000\tSox17\t810.0\t198000\t0.000246913580\t1.000000000000\t0.347399909840\t0.200000000000\n+chr1\t4686000\t4687000\tSox17\t810.0\t199000\t0.000308641975\t1.000000000000\t0.444875298484\t0.250000000000\n+chr1\t4687000\t4688000\tSox17\t810.0\t200000\t0.000411522634\t1.000000000000\t0.627229741958\t0.333333333333\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_14300280_14300280_Eya1.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.4.3\n+# MB-E10-5_chr1.cool\tchr1_14300280_14300280\t14.10 Mbp\t14.50 Mbp\tEya1\tSum of interactions in fixate range: 832.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t14100000\t14101000\tEya1\t832.0\t-200000\t0.000400641026\t0.028365821799\t2.426424093120\t0.333333333333\n+chr1\t14101000\t14102000\tEya1\t832.0\t-199000\t0.000300480769\t0.036748857670\t1.429857059822\t0.250000000000\n+chr1\t14102000\t14103000\tEya1\t832.0\t-198000\t0.000240384615\t0.042850447268\t0.931069711724\t0.200000000000\n+chr1\t14103000\t14104000\tEya1\t832.0\t-197000\t0.000240384615\t0.042850447268\t0.889688835341\t0.200000000000\n+chr1\t14104000\t14105000\tEya1\t832.0\t-196000\t0.000240384615\t0.042850447268\t0.976487746811\t0.200000000000\n+chr1\t14105000\t14106000\tEya1\t832.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14106000\t14107000\tEya1\t832.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14107000\t14108000\tEya1\t832.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14108000\t14109000\tEya1\t832.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14109000\t14110000\tEya1\t832.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14110000\t14111000\tEya1\t832.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14111000\t14112000\tEya1\t832.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14112000\t14113000\tEya1\t832.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14113000\t14114000\tEya1\t832.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14114000\t14115000\tEya1\t832.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14115000\t14116000\tEya1\t832.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14116000\t14117000\tEya1\t832.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14117000\t14118000\tEya1\t832.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14118000\t14119000\tEya1\t832.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14119000\t14120000\tEya1\t832.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14120000\t14121000\tEya1\t832.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14121000\t14122000\tEya1\t832.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14122000\t14123000\tEya1\t832.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14123000\t14124000\tEya1\t832.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14124000\t14125000\tEya1\t832.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14125000\t14126000\tEya1\t832.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14126000\t14127000\tEya1\t832.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14127000\t14128000\tEya1\t832.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14128000\t14129000\tEya1\t832.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14129000\t14130000\tEya1\t832.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14130000\t14131000\tEya1\t832.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14131000\t14132000\tEya1\t832.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14132000\t14133000\tEya1\t832.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14133000\t14134000\tEya1\t832.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14134000\t14135000\tEya1\t832.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14135000\t14136000\tEya1\t832.0\t-165000\t0.000000000000\t1.000000000000\t0"..b'96844\t1.600000000000\n+chr1\t14462000\t14463000\tEya1\t832.0\t162000\t0.002163461538\t0.000000000000\t2.941420233350\t1.800000000000\n+chr1\t14463000\t14464000\tEya1\t832.0\t163000\t0.001682692308\t0.000000000000\t2.325742597467\t1.400000000000\n+chr1\t14464000\t14465000\tEya1\t832.0\t164000\t0.001682692308\t0.000000000000\t2.426424095919\t1.400000000000\n+chr1\t14465000\t14466000\tEya1\t832.0\t165000\t0.000721153846\t0.000000000000\t1.106986108791\t0.600000000000\n+chr1\t14466000\t14467000\tEya1\t832.0\t166000\t0.000240384615\t0.000000000000\t0.400359976274\t0.200000000000\n+chr1\t14467000\t14468000\tEya1\t832.0\t167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14468000\t14469000\tEya1\t832.0\t168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14469000\t14470000\tEya1\t832.0\t169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14470000\t14471000\tEya1\t832.0\t170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14471000\t14472000\tEya1\t832.0\t171000\t0.000480769231\t0.000000000000\t0.659028767461\t0.400000000000\n+chr1\t14472000\t14473000\tEya1\t832.0\t172000\t0.000480769231\t0.000000000000\t0.618316565296\t0.400000000000\n+chr1\t14473000\t14474000\tEya1\t832.0\t173000\t0.000480769231\t0.000000000000\t0.630488151323\t0.400000000000\n+chr1\t14474000\t14475000\tEya1\t832.0\t174000\t0.000480769231\t0.000000000000\t0.667266626197\t0.400000000000\n+chr1\t14475000\t14476000\tEya1\t832.0\t175000\t0.000480769231\t0.000000000000\t0.690275820369\t0.400000000000\n+chr1\t14476000\t14477000\tEya1\t832.0\t176000\t0.000240384615\t0.000000000000\t0.340731894279\t0.200000000000\n+chr1\t14477000\t14478000\tEya1\t832.0\t177000\t0.000480769231\t0.000000000000\t0.727927229038\t0.400000000000\n+chr1\t14478000\t14479000\tEya1\t832.0\t178000\t0.000480769231\t0.000000000000\t0.755396181293\t0.400000000000\n+chr1\t14479000\t14480000\tEya1\t832.0\t179000\t0.000480769231\t0.000000000000\t0.769923031050\t0.400000000000\n+chr1\t14480000\t14481000\tEya1\t832.0\t180000\t0.000480769231\t0.000000000000\t0.812913656138\t0.400000000000\n+chr1\t14481000\t14482000\tEya1\t832.0\t181000\t0.000240384615\t0.000000000000\t0.408530587410\t0.200000000000\n+chr1\t14482000\t14483000\tEya1\t832.0\t182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14483000\t14484000\tEya1\t832.0\t183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t14484000\t14485000\tEya1\t832.0\t184000\t0.000240384615\t0.000000000000\t0.390595098725\t0.200000000000\n+chr1\t14485000\t14486000\tEya1\t832.0\t185000\t0.000961538462\t0.000000000000\t1.539846062099\t0.800000000000\n+chr1\t14486000\t14487000\tEya1\t832.0\t186000\t0.000961538462\t0.000000000000\t1.703659471393\t0.800000000000\n+chr1\t14487000\t14488000\tEya1\t832.0\t187000\t0.000961538462\t0.000000000000\t1.731286381939\t0.800000000000\n+chr1\t14488000\t14489000\tEya1\t832.0\t188000\t0.001201923077\t0.000000000000\t2.140962437394\t1.000000000000\n+chr1\t14489000\t14490000\tEya1\t832.0\t189000\t0.001442307692\t0.000000000000\t2.793209135173\t1.200000000000\n+chr1\t14490000\t14491000\tEya1\t832.0\t190000\t0.000721153846\t0.000000000000\t1.404771845823\t0.600000000000\n+chr1\t14491000\t14492000\tEya1\t832.0\t191000\t0.001442307692\t0.000000000000\t2.669066506024\t1.200000000000\n+chr1\t14492000\t14493000\tEya1\t832.0\t192000\t0.002403846154\t0.000000000000\t4.399560174407\t2.000000000000\n+chr1\t14493000\t14494000\tEya1\t832.0\t193000\t0.002163461538\t0.000000000000\t4.289571172663\t1.800000000000\n+chr1\t14494000\t14495000\tEya1\t832.0\t194000\t0.001682692308\t0.000000000000\t3.239907320421\t1.400000000000\n+chr1\t14495000\t14496000\tEya1\t832.0\t195000\t0.002163461538\t0.000000000000\t4.421153111551\t1.800000000000\n+chr1\t14496000\t14497000\tEya1\t832.0\t196000\t0.001682692308\t0.000000000000\t3.438674642317\t1.400000000000\n+chr1\t14497000\t14498000\tEya1\t832.0\t197000\t0.001442307692\t0.000000000000\t2.729727108893\t1.200000000000\n+chr1\t14498000\t14499000\tEya1\t832.0\t198000\t0.002644230769\t0.000000000000\t4.317607586564\t2.200000000000\n+chr1\t14499000\t14500000\tEya1\t832.0\t199000\t0.003305288462\t0.000000000000\t5.764345200343\t2.750000000000\n+chr1\t14500000\t14501000\tEya1\t832.0\t200000\t0.003605769231\t0.000000000000\t6.127958811148\t3.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.6\n+# MB-E10-5_chr1.cool\tchr1_19093103_19093103\t18.89 Mbp\t19.29 Mbp\tTfap2d\tSum of interactions in fixate range: 800.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t18893000\t18894000\tTfap2d\t800.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18894000\t18895000\tTfap2d\t800.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18895000\t18896000\tTfap2d\t800.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18896000\t18897000\tTfap2d\t800.0\t-197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18897000\t18898000\tTfap2d\t800.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18898000\t18899000\tTfap2d\t800.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18899000\t18900000\tTfap2d\t800.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18900000\t18901000\tTfap2d\t800.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18901000\t18902000\tTfap2d\t800.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18902000\t18903000\tTfap2d\t800.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18903000\t18904000\tTfap2d\t800.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18904000\t18905000\tTfap2d\t800.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18905000\t18906000\tTfap2d\t800.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18906000\t18907000\tTfap2d\t800.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18907000\t18908000\tTfap2d\t800.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18908000\t18909000\tTfap2d\t800.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18909000\t18910000\tTfap2d\t800.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18910000\t18911000\tTfap2d\t800.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18911000\t18912000\tTfap2d\t800.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18912000\t18913000\tTfap2d\t800.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18913000\t18914000\tTfap2d\t800.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18914000\t18915000\tTfap2d\t800.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18915000\t18916000\tTfap2d\t800.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18916000\t18917000\tTfap2d\t800.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18917000\t18918000\tTfap2d\t800.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18918000\t18919000\tTfap2d\t800.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18919000\t18920000\tTfap2d\t800.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18920000\t18921000\tTfap2d\t800.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18921000\t18922000\tTfap2d\t800.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18922000\t18923000\tTfap2d\t800.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18923000\t18924000\tTfap2d\t800.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18924000\t18925000\tTfap2d\t800.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18925000\t18926000\tTfap2d\t800.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18926000\t18927000\tTfap2d\t800.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t18927000\t18928000\tTfap2d\t800.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr"..b'0\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19256000\t19257000\tTfap2d\t800.0\t163000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19257000\t19258000\tTfap2d\t800.0\t164000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19258000\t19259000\tTfap2d\t800.0\t165000\t0.000250000000\t1.000000000000\t0.350915402129\t0.200000000000\n+chr1\t19259000\t19260000\tTfap2d\t800.0\t166000\t0.000500000000\t1.000000000000\t0.629690695867\t0.400000000000\n+chr1\t19260000\t19261000\tTfap2d\t800.0\t167000\t0.000750000000\t1.000000000000\t0.945902347688\t0.600000000000\n+chr1\t19261000\t19262000\tTfap2d\t800.0\t168000\t0.000750000000\t1.000000000000\t0.960371964201\t0.600000000000\n+chr1\t19262000\t19263000\tTfap2d\t800.0\t169000\t0.001000000000\t1.000000000000\t1.156750545807\t0.800000000000\n+chr1\t19263000\t19264000\tTfap2d\t800.0\t170000\t0.000750000000\t1.000000000000\t0.910783479301\t0.600000000000\n+chr1\t19264000\t19265000\tTfap2d\t800.0\t171000\t0.000750000000\t1.000000000000\t0.885869770168\t0.600000000000\n+chr1\t19265000\t19266000\tTfap2d\t800.0\t172000\t0.000500000000\t1.000000000000\t0.565404234542\t0.400000000000\n+chr1\t19266000\t19267000\tTfap2d\t800.0\t173000\t0.000750000000\t1.000000000000\t0.933985467557\t0.600000000000\n+chr1\t19267000\t19268000\tTfap2d\t800.0\t174000\t0.000500000000\t1.000000000000\t0.610165403210\t0.400000000000\n+chr1\t19268000\t19269000\tTfap2d\t800.0\t175000\t0.000750000000\t1.000000000000\t0.965744551450\t0.600000000000\n+chr1\t19269000\t19270000\tTfap2d\t800.0\t176000\t0.000750000000\t1.000000000000\t0.953415898353\t0.600000000000\n+chr1\t19270000\t19271000\tTfap2d\t800.0\t177000\t0.000750000000\t1.000000000000\t0.978483428599\t0.600000000000\n+chr1\t19271000\t19272000\tTfap2d\t800.0\t178000\t0.000500000000\t1.000000000000\t0.676938220343\t0.400000000000\n+chr1\t19272000\t19273000\tTfap2d\t800.0\t179000\t0.000500000000\t1.000000000000\t0.718117743421\t0.400000000000\n+chr1\t19273000\t19274000\tTfap2d\t800.0\t180000\t0.000250000000\t1.000000000000\t0.371674357090\t0.200000000000\n+chr1\t19274000\t19275000\tTfap2d\t800.0\t181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19275000\t19276000\tTfap2d\t800.0\t182000\t0.000250000000\t1.000000000000\t0.409401302867\t0.200000000000\n+chr1\t19276000\t19277000\tTfap2d\t800.0\t183000\t0.000250000000\t1.000000000000\t0.366099241837\t0.200000000000\n+chr1\t19277000\t19278000\tTfap2d\t800.0\t184000\t0.000750000000\t1.000000000000\t1.135800575275\t0.600000000000\n+chr1\t19278000\t19279000\tTfap2d\t800.0\t185000\t0.000750000000\t1.000000000000\t1.077176615132\t0.600000000000\n+chr1\t19279000\t19280000\tTfap2d\t800.0\t186000\t0.000750000000\t1.000000000000\t1.145033799329\t0.600000000000\n+chr1\t19280000\t19281000\tTfap2d\t800.0\t187000\t0.000500000000\t1.000000000000\t0.759903290695\t0.400000000000\n+chr1\t19281000\t19282000\tTfap2d\t800.0\t188000\t0.000500000000\t1.000000000000\t0.767437983333\t0.400000000000\n+chr1\t19282000\t19283000\tTfap2d\t800.0\t189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19283000\t19284000\tTfap2d\t800.0\t190000\t0.000250000000\t1.000000000000\t0.411058797704\t0.200000000000\n+chr1\t19284000\t19285000\tTfap2d\t800.0\t191000\t0.000250000000\t1.000000000000\t0.414912474122\t0.200000000000\n+chr1\t19285000\t19286000\tTfap2d\t800.0\t192000\t0.000250000000\t1.000000000000\t0.394260722067\t0.200000000000\n+chr1\t19286000\t19287000\tTfap2d\t800.0\t193000\t0.000500000000\t1.000000000000\t0.767065077813\t0.400000000000\n+chr1\t19287000\t19288000\tTfap2d\t800.0\t194000\t0.000500000000\t1.000000000000\t0.829542790092\t0.400000000000\n+chr1\t19288000\t19289000\tTfap2d\t800.0\t195000\t0.000250000000\t1.000000000000\t0.431233462800\t0.200000000000\n+chr1\t19289000\t19290000\tTfap2d\t800.0\t196000\t0.000250000000\t1.000000000000\t0.422249431901\t0.200000000000\n+chr1\t19290000\t19291000\tTfap2d\t800.0\t197000\t0.000250000000\t1.000000000000\t0.399380990776\t0.200000000000\n+chr1\t19291000\t19292000\tTfap2d\t800.0\t198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19292000\t19293000\tTfap2d\t800.0\t199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t19293000\t19294000\tTfap2d\t800.0\t200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_4487435_4487435_Sox17.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,405 @@\n+# Interaction file, created with HiCExplorer's chicViewpoint version 3.4.3\n+# MB-E10-5_chr1.cool\tchr1_4487435_4487435\t4.29 Mbp\t4.69 Mbp\tSox17\tSum of interactions in fixate range: 978.0\n+# Chromosome\tStart\tEnd\tGene\tSum of interactions\tRelative position\tRelative Interactions\tp-value\tx-fold\tRaw\n+#\n+chr1\t4287000\t4288000\tSox17\t978.0\t-200000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4288000\t4289000\tSox17\t978.0\t-199000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4289000\t4290000\tSox17\t978.0\t-198000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4290000\t4291000\tSox17\t978.0\t-197000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4291000\t4292000\tSox17\t978.0\t-196000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4292000\t4293000\tSox17\t978.0\t-195000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4293000\t4294000\tSox17\t978.0\t-194000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4294000\t4295000\tSox17\t978.0\t-193000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4295000\t4296000\tSox17\t978.0\t-192000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4296000\t4297000\tSox17\t978.0\t-191000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4297000\t4298000\tSox17\t978.0\t-190000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4298000\t4299000\tSox17\t978.0\t-189000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4299000\t4300000\tSox17\t978.0\t-188000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4300000\t4301000\tSox17\t978.0\t-187000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4301000\t4302000\tSox17\t978.0\t-186000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4302000\t4303000\tSox17\t978.0\t-185000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4303000\t4304000\tSox17\t978.0\t-184000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4304000\t4305000\tSox17\t978.0\t-183000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4305000\t4306000\tSox17\t978.0\t-182000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4306000\t4307000\tSox17\t978.0\t-181000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4307000\t4308000\tSox17\t978.0\t-180000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4308000\t4309000\tSox17\t978.0\t-179000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4309000\t4310000\tSox17\t978.0\t-178000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4310000\t4311000\tSox17\t978.0\t-177000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4311000\t4312000\tSox17\t978.0\t-176000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4312000\t4313000\tSox17\t978.0\t-175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4313000\t4314000\tSox17\t978.0\t-174000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4314000\t4315000\tSox17\t978.0\t-173000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4315000\t4316000\tSox17\t978.0\t-172000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4316000\t4317000\tSox17\t978.0\t-171000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4317000\t4318000\tSox17\t978.0\t-170000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4318000\t4319000\tSox17\t978.0\t-169000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4319000\t4320000\tSox17\t978.0\t-168000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4320000\t4321000\tSox17\t978.0\t-167000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4321000\t4322000\tSox17\t978.0\t-166000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4322000\t4323000\tSox17\t978.0\t-165000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4323"..b'0.000613496933\t0.000000000000\t0.737745564637\t0.600000000000\n+chr1\t4649000\t4650000\tSox17\t978.0\t162000\t0.000408997955\t0.000000000000\t0.556069446523\t0.400000000000\n+chr1\t4650000\t4651000\tSox17\t978.0\t163000\t0.000204498978\t0.000000000000\t0.282649407113\t0.200000000000\n+chr1\t4651000\t4652000\tSox17\t978.0\t164000\t0.000204498978\t0.000000000000\t0.294885312271\t0.200000000000\n+chr1\t4652000\t4653000\tSox17\t978.0\t165000\t0.000204498978\t0.000000000000\t0.313910171273\t0.200000000000\n+chr1\t4653000\t4654000\tSox17\t978.0\t166000\t0.000817995910\t0.000000000000\t1.362370144213\t0.800000000000\n+chr1\t4654000\t4655000\tSox17\t978.0\t167000\t0.000817995910\t0.000000000000\t1.303703486817\t0.800000000000\n+chr1\t4655000\t4656000\tSox17\t978.0\t168000\t0.000817995910\t0.000000000000\t1.267321063648\t0.800000000000\n+chr1\t4656000\t4657000\tSox17\t978.0\t169000\t0.001226993865\t0.000000000000\t1.717273288741\t1.200000000000\n+chr1\t4657000\t4658000\tSox17\t978.0\t170000\t0.001226993865\t0.000000000000\t1.661427004800\t1.200000000000\n+chr1\t4658000\t4659000\tSox17\t978.0\t171000\t0.000613496933\t0.000000000000\t0.840969224736\t0.600000000000\n+chr1\t4659000\t4660000\tSox17\t978.0\t172000\t0.000613496933\t0.000000000000\t0.789017457556\t0.600000000000\n+chr1\t4660000\t4661000\tSox17\t978.0\t173000\t0.000613496933\t0.000000000000\t0.804549297394\t0.600000000000\n+chr1\t4661000\t4662000\tSox17\t978.0\t174000\t0.000204498978\t0.000000000000\t0.283827112984\t0.200000000000\n+chr1\t4662000\t4663000\tSox17\t978.0\t175000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n+chr1\t4663000\t4664000\tSox17\t978.0\t176000\t0.000408997955\t0.000000000000\t0.579731975542\t0.400000000000\n+chr1\t4664000\t4665000\tSox17\t978.0\t177000\t0.001022494888\t0.000000000000\t1.548147889979\t1.000000000000\n+chr1\t4665000\t4666000\tSox17\t978.0\t178000\t0.001022494888\t0.000000000000\t1.606568565531\t1.000000000000\n+chr1\t4666000\t4667000\tSox17\t978.0\t179000\t0.001226993865\t0.000000000000\t1.964956938139\t1.200000000000\n+chr1\t4667000\t4668000\tSox17\t978.0\t180000\t0.001226993865\t0.000000000000\t2.074675343272\t1.200000000000\n+chr1\t4668000\t4669000\tSox17\t978.0\t181000\t0.001022494888\t0.000000000000\t1.737717018021\t1.000000000000\n+chr1\t4669000\t4670000\tSox17\t978.0\t182000\t0.000408997955\t0.000000000000\t0.732457065928\t0.400000000000\n+chr1\t4670000\t4671000\tSox17\t978.0\t183000\t0.000613496933\t0.000000000000\t1.064351673689\t0.600000000000\n+chr1\t4671000\t4672000\tSox17\t978.0\t184000\t0.000817995910\t0.000000000000\t1.329141603840\t0.800000000000\n+chr1\t4672000\t4673000\tSox17\t978.0\t185000\t0.000817995910\t0.000000000000\t1.309971292093\t0.800000000000\n+chr1\t4673000\t4674000\tSox17\t978.0\t186000\t0.000817995910\t0.000000000000\t1.449329938854\t0.800000000000\n+chr1\t4674000\t4675000\tSox17\t978.0\t187000\t0.001226993865\t0.000000000000\t2.209248880021\t1.200000000000\n+chr1\t4675000\t4676000\tSox17\t978.0\t188000\t0.001022494888\t0.000000000000\t1.821350457987\t1.000000000000\n+chr1\t4676000\t4677000\tSox17\t978.0\t189000\t0.000817995910\t0.000000000000\t1.584151329559\t0.800000000000\n+chr1\t4677000\t4678000\tSox17\t978.0\t190000\t0.001022494888\t0.000000000000\t1.991769215618\t1.000000000000\n+chr1\t4678000\t4679000\tSox17\t978.0\t191000\t0.001226993865\t0.000000000000\t2.270616904920\t1.200000000000\n+chr1\t4679000\t4680000\tSox17\t978.0\t192000\t0.000817995910\t0.000000000000\t1.497110047078\t0.800000000000\n+chr1\t4680000\t4681000\tSox17\t978.0\t193000\t0.001022494888\t0.000000000000\t2.027336523322\t1.000000000000\n+chr1\t4681000\t4682000\tSox17\t978.0\t194000\t0.000817995910\t0.000000000000\t1.574994385387\t0.800000000000\n+chr1\t4682000\t4683000\tSox17\t978.0\t195000\t0.000613496933\t0.000000000000\t1.253714856445\t0.600000000000\n+chr1\t4683000\t4684000\tSox17\t978.0\t196000\t0.000204498978\t0.000000000000\t0.417904952148\t0.200000000000\n+chr1\t4684000\t4685000\tSox17\t978.0\t197000\t0.001022494888\t0.000000000000\t1.935184862473\t1.000000000000\n+chr1\t4685000\t4686000\tSox17\t978.0\t198000\t0.000817995910\t0.000000000000\t1.335657003912\t0.800000000000\n+chr1\t4686000\t4687000\tSox17\t978.0\t199000\t0.001022494888\t0.000000000000\t1.783206992633\t1.000000000000\n+chr1\t4687000\t4688000\tSox17\t978.0\t200000\t0.001363326517\t0.000000000000\t2.316956024029\t1.333333333333\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/two_matrices.hdf5 |
| b |
| Binary file test-data/cHi-C/chicViewpoint/two_matrices.hdf5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/chicViewpoint/viewpoints.tar |
| b |
| Binary file test-data/cHi-C/chicViewpoint/viewpoints.tar has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/hg19.chrom.sizes --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/hg19.chrom.sizes Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,93 @@ +chr1 249250621 +chr2 243199373 +chr3 198022430 +chr4 191154276 +chr5 180915260 +chr6 171115067 +chr7 159138663 +chrX 155270560 +chr8 146364022 +chr9 141213431 +chr10 135534747 +chr11 135006516 +chr12 133851895 +chr13 115169878 +chr14 107349540 +chr15 102531392 +chr16 90354753 +chr17 81195210 +chr18 78077248 +chr20 63025520 +chrY 59373566 +chr19 59128983 +chr22 51304566 +chr21 48129895 +chr6_ssto_hap7 4928567 +chr6_mcf_hap5 4833398 +chr6_cox_hap2 4795371 +chr6_mann_hap4 4683263 +chr6_apd_hap1 4622290 +chr6_qbl_hap6 4611984 +chr6_dbb_hap3 4610396 +chr17_ctg5_hap1 1680828 +chr4_ctg9_hap1 590426 +chr1_gl000192_random 547496 +chrUn_gl000225 211173 +chr4_gl000194_random 191469 +chr4_gl000193_random 189789 +chr9_gl000200_random 187035 +chrUn_gl000222 186861 +chrUn_gl000212 186858 +chr7_gl000195_random 182896 +chrUn_gl000223 180455 +chrUn_gl000224 179693 +chrUn_gl000219 179198 +chr17_gl000205_random 174588 +chrUn_gl000215 172545 +chrUn_gl000216 172294 +chrUn_gl000217 172149 +chr9_gl000199_random 169874 +chrUn_gl000211 166566 +chrUn_gl000213 164239 +chrUn_gl000220 161802 +chrUn_gl000218 161147 +chr19_gl000209_random 159169 +chrUn_gl000221 155397 +chrUn_gl000214 137718 +chrUn_gl000228 129120 +chrUn_gl000227 128374 +chr1_gl000191_random 106433 +chr19_gl000208_random 92689 +chr9_gl000198_random 90085 +chr17_gl000204_random 81310 +chrUn_gl000233 45941 +chrUn_gl000237 45867 +chrUn_gl000230 43691 +chrUn_gl000242 43523 +chrUn_gl000243 43341 +chrUn_gl000241 42152 +chrUn_gl000236 41934 +chrUn_gl000240 41933 +chr17_gl000206_random 41001 +chrUn_gl000232 40652 +chrUn_gl000234 40531 +chr11_gl000202_random 40103 +chrUn_gl000238 39939 +chrUn_gl000244 39929 +chrUn_gl000248 39786 +chr8_gl000196_random 38914 +chrUn_gl000249 38502 +chrUn_gl000246 38154 +chr17_gl000203_random 37498 +chr8_gl000197_random 37175 +chrUn_gl000245 36651 +chrUn_gl000247 36422 +chr9_gl000201_random 36148 +chrUn_gl000235 34474 +chrUn_gl000239 33824 +chr21_gl000210_random 27682 +chrUn_gl000231 27386 +chrUn_gl000229 19913 +chrM 16571 +chrUn_gl000226 15008 +chr18_gl000207_random 4262 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/plots.tar.gz |
| b |
| Binary file test-data/cHi-C/plots.tar.gz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/referencePoints.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/referencePoints.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,43 @@ +chr1 4487435 4487435 Sox17 +chr1 14300280 14300280 Eya1 +chr1 19093103 19093103 Tfap2d +chr1 19198995 19198995 Tfap2b +chr1 24202042 24202042 Col9a1 +chr1 33776741 33776741 Rab23 +chr1 38684089 38684089 Aff3 +chr1 42753991 42753991 Pou3f3 +chr1 52176282 52176282 Stat1 +chr1 52557292 52557292 Nab1 +chr1 53118507 53118507 Mstn +chr1 57028178 57028178 Satb2 +chr1 59821123 59821123 Bmpr2 +chr1 66991630 66991630 Myl1 +chr1 74648029 74648029 Stk36 +chr1 74818466 74818466 Wnt6 +chr1 74838593 74838593 Wnt10a +chr1 74998246 74998246 Ihh +chr1 75356867 75356867 Des +chr1 77511663 77511663 Epha4 +chr1 78193711 78193711 Pax3 +chr1 89102386 89102386 Chrng +chr1 93355905 93355905 Per2 +chr1 93698054 93698054 Twist2 +chr1 94076918 94076918 Hdac4 +chr1 107677300 107677300 Tnfrsf11a +chr1 120950196 120950196 Gli2 +chr1 122499064 122499064 En1 +chr1 127808791 127808791 Lypd1 +chr1 135934092 135934092 Fmod +chr1 136186581 136186581 MyoG +chr1 152313295 152313295 Prg4 +chr1 164004278 164006270 mm712 +chr1 164147754 164147754 Dnm3os +chr1 165243781 165243781 Prrx1 +chr1 165333772 165333772 Gorab +chr1 169619689 169619689 Lmx1a +chr1 170362300 170362300 Pbx1 +chr1 180249284 180249284 Gm16586 +chr1 182823250 182823250 Lefty2 +chr1 182865170 182865170 Lefty1 +chr1 188529871 188529871 Tgfb2 +chr1 194979306 194979306 Irf6 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/referencePoints_chicViewpoint.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/referencePoints_chicViewpoint.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +chr1 4487435 4487435 Sox17 +chr1 14300280 14300280 Eya1 +chr1 19093103 19093103 Tfap2d \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/cHi-C/target_list.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cHi-C/target_list.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +chr1 4480000 4549000 +chr1 4555000 4688000 +chr1 14274000 14279000 +chr1 14290000 14439000 +chr1 14444000 14467000 +chr1 14476000 14501000 +chr1 19077000 19118000 +chr1 19120000 19274000 \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/distVsCounts.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/distVsCounts.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,600 @@\n+\tMatrix\tChromosome\tDistance\tContacts\tNumber_bins\tScale_factor\n+0\tsmall_test_matrix_h5\tall\t0\t0.09142620133910055\t33754\t1.0\n+1\tsmall_test_matrix_h5\tall\t5000\t0.07741782506891134\t33739\t1.0\n+2\tsmall_test_matrix_h5\tall\t10000\t0.04433044715929309\t33724\t1.0\n+3\tsmall_test_matrix_h5\tall\t15000\t0.03461983446557299\t33709\t1.0\n+4\tsmall_test_matrix_h5\tall\t20000\t0.027541995607526563\t33694\t1.0\n+5\tsmall_test_matrix_h5\tall\t25000\t0.023782660332541568\t33680\t1.0\n+6\tsmall_test_matrix_h5\tall\t30000\t0.02002019841977069\t33666\t1.0\n+7\tsmall_test_matrix_h5\tall\t35000\t0.01967193628907643\t33652\t1.0\n+8\tsmall_test_matrix_h5\tall\t40000\t0.017480230691479873\t33638\t1.0\n+9\tsmall_test_matrix_h5\tall\t45000\t0.015494884606233642\t33624\t1.0\n+10\tsmall_test_matrix_h5\tall\t50000\t0.014013686402856293\t33610\t1.0\n+11\tsmall_test_matrix_h5\tall\t55000\t0.012799142755089891\t33596\t1.0\n+12\tsmall_test_matrix_h5\tall\t60000\t0.011404919302007028\t33582\t1.0\n+13\tsmall_test_matrix_h5\tall\t65000\t0.011588417540514775\t33568\t1.0\n+14\tsmall_test_matrix_h5\tall\t70000\t0.01084818501519938\t33554\t1.0\n+15\tsmall_test_matrix_h5\tall\t75000\t0.010554561717352416\t33540\t1.0\n+16\tsmall_test_matrix_h5\tall\t80000\t0.008769313368728748\t33526\t1.0\n+17\tsmall_test_matrix_h5\tall\t85000\t0.00907137741704464\t33512\t1.0\n+18\tsmall_test_matrix_h5\tall\t90000\t0.008328855454056958\t33498\t1.0\n+19\tsmall_test_matrix_h5\tall\t95000\t0.009049098076693346\t33484\t1.0\n+20\tsmall_test_matrix_h5\tall\t100000\t0.007140723035554228\t33470\t1.0\n+21\tsmall_test_matrix_h5\tall\t105000\t0.006874701099952176\t33456\t1.0\n+22\tsmall_test_matrix_h5\tall\t110000\t0.006488846360863585\t33442\t1.0\n+23\tsmall_test_matrix_h5\tall\t115000\t0.005354792389613497\t33428\t1.0\n+24\tsmall_test_matrix_h5\tall\t120000\t0.006584066558927396\t33414\t1.0\n+25\tsmall_test_matrix_h5\tall\t125000\t0.005598802395209581\t33400\t1.0\n+26\tsmall_test_matrix_h5\tall\t130000\t0.005990534954771461\t33386\t1.0\n+27\tsmall_test_matrix_h5\tall\t135000\t0.005393743257820928\t33372\t1.0\n+28\tsmall_test_matrix_h5\tall\t140000\t0.0048564062593680676\t33358\t1.0\n+29\tsmall_test_matrix_h5\tall\t145000\t0.005338291746641075\t33344\t1.0\n+30\tsmall_test_matrix_h5\tall\t150000\t0.0047404740474047405\t33330\t1.0\n+31\tsmall_test_matrix_h5\tall\t155000\t0.004892544122943931\t33316\t1.0\n+32\tsmall_test_matrix_h5\tall\t160000\t0.004864572698336437\t33302\t1.0\n+33\tsmall_test_matrix_h5\tall\t165000\t0.004025474645517904\t33288\t1.0\n+34\tsmall_test_matrix_h5\tall\t170000\t0.004538077778445633\t33274\t1.0\n+35\tsmall_test_matrix_h5\tall\t175000\t0.0036380036079374624\t33260\t1.0\n+36\tsmall_test_matrix_h5\tall\t180000\t0.003970402454430608\t33246\t1.0\n+37\tsmall_test_matrix_h5\tall\t185000\t0.0030994222436206064\t33232\t1.0\n+38\tsmall_test_matrix_h5\tall\t190000\t0.0034318742850261907\t33218\t1.0\n+39\tsmall_test_matrix_h5\tall\t195000\t0.0034333212865919767\t33204\t1.0\n+40\tsmall_test_matrix_h5\tall\t200000\t0.0031334739379331126\t33190\t1.0\n+41\tsmall_test_matrix_h5\tall\t205000\t0.0035869303110682422\t33176\t1.0\n+42\tsmall_test_matrix_h5\tall\t210000\t0.0030154087386545245\t33163\t1.0\n+43\tsmall_test_matrix_h5\tall\t215000\t0.002865761689291101\t33150\t1.0\n+44\tsmall_test_matrix_h5\tall\t220000\t0.0026254639828590396\t33137\t1.0\n+45\tsmall_test_matrix_h5\tall\t225000\t0.0027774423378818984\t33124\t1.0\n+46\tsmall_test_matrix_h5\tall\t230000\t0.0027483313702394976\t33111\t1.0\n+47\tsmall_test_matrix_h5\tall\t235000\t0.002265997945495196\t33098\t1.0\n+48\tsmall_test_matrix_h5\tall\t240000\t0.0025691400936980503\t33085\t1.0\n+49\tsmall_test_matrix_h5\tall\t245000\t0.001904934687953556\t33072\t1.0\n+50\tsmall_test_matrix_h5\tall\t250000\t0.00266190749871442\t33059\t1.0\n+51\tsmall_test_matrix_h5\tall\t255000\t0.002511650426677964\t33046\t1.0\n+52\tsmall_test_matrix_h5\tall\t260000\t0.0026942754215481487\t33033\t1.0\n+53\tsmall_test_matrix_h5\tall\t265000\t0.0026650514839491215\t33020\t1.0\n+54\tsmall_test_matrix_h5\tall\t270000\t0.002120762262550368\t33007\t1.0\n+55\tsmall_test_matrix_h5\tall\t275000\t0.002697460144268655\t32994\t1.0\n+56\tsmall_test_matrix_h5\tall\t280000\t0.0020314726660804706\t32981\t1.0\n+57\tsmall_test_matrix_h5\tall\t285000\t0.002062606163552536\t32968\t1.0\n+58\tsmall_test_matrix_h5\tall\t290000\t0.0020937642239417385\t32'..b'_h5\tall\t2715000\t3.579866828953963e-05\t27934\t1.0\n+543\tsmall_test_matrix_h5\tall\t2720000\t0.0001432356943350283\t27926\t1.0\n+544\tsmall_test_matrix_h5\tall\t2725000\t3.581918475535497e-05\t27918\t1.0\n+545\tsmall_test_matrix_h5\tall\t2730000\t0.00014331780723754928\t27910\t1.0\n+546\tsmall_test_matrix_h5\tall\t2735000\t0.00021503834850548347\t27902\t1.0\n+547\tsmall_test_matrix_h5\tall\t2740000\t7.170000717000071e-05\t27894\t1.0\n+548\tsmall_test_matrix_h5\tall\t2745000\t0.0003586028831671807\t27886\t1.0\n+549\tsmall_test_matrix_h5\tall\t2750000\t0.00014348231580457708\t27878\t1.0\n+550\tsmall_test_matrix_h5\tall\t2755000\t0.00014352350197344816\t27870\t1.0\n+551\tsmall_test_matrix_h5\tall\t2760000\t7.178235589692053e-05\t27862\t1.0\n+552\tsmall_test_matrix_h5\tall\t2765000\t0.00014360594528613484\t27854\t1.0\n+553\tsmall_test_matrix_h5\tall\t2770000\t0.00025138260432378077\t27846\t1.0\n+554\tsmall_test_matrix_h5\tall\t2775000\t0.00014368848336805806\t27838\t1.0\n+555\tsmall_test_matrix_h5\tall\t2780000\t0.00014372978799856272\t27830\t1.0\n+556\tsmall_test_matrix_h5\tall\t2785000\t0.0001437711163827187\t27822\t1.0\n+557\tsmall_test_matrix_h5\tall\t2790000\t0.00025167181994678936\t27814\t1.0\n+558\tsmall_test_matrix_h5\tall\t2795000\t0.0001438538444939941\t27806\t1.0\n+559\tsmall_test_matrix_h5\tall\t2800000\t0.00010792143319663285\t27798\t1.0\n+560\tsmall_test_matrix_h5\tall\t2805000\t0.00021590500179920834\t27790\t1.0\n+561\tsmall_test_matrix_h5\tall\t2810000\t0.00017997264415808796\t27782\t1.0\n+562\tsmall_test_matrix_h5\tall\t2815000\t3.600489666594657e-05\t27774\t1.0\n+563\tsmall_test_matrix_h5\tall\t2820000\t0.0002160916228480876\t27766\t1.0\n+564\tsmall_test_matrix_h5\tall\t2825000\t0.000144102601051949\t27758\t1.0\n+565\tsmall_test_matrix_h5\tall\t2830000\t0.00014414414414414415\t27750\t1.0\n+566\tsmall_test_matrix_h5\tall\t2835000\t0.0002523249945930358\t27742\t1.0\n+567\tsmall_test_matrix_h5\tall\t2840000\t0.00018028412778538978\t27734\t1.0\n+568\tsmall_test_matrix_h5\tall\t2845000\t0.00010820168794633196\t27726\t1.0\n+569\tsmall_test_matrix_h5\tall\t2850000\t0.00018038819539649325\t27718\t1.0\n+570\tsmall_test_matrix_h5\tall\t2855000\t7.217610970768675e-05\t27710\t1.0\n+571\tsmall_test_matrix_h5\tall\t2860000\t0.0003248862897985705\t27702\t1.0\n+572\tsmall_test_matrix_h5\tall\t2865000\t0.00018054452227919405\t27694\t1.0\n+573\tsmall_test_matrix_h5\tall\t2870000\t0.0002889547063497797\t27686\t1.0\n+574\tsmall_test_matrix_h5\tall\t2875000\t0.00036129778163162076\t27678\t1.0\n+575\tsmall_test_matrix_h5\tall\t2880000\t0.00014456089627755693\t27670\t1.0\n+576\tsmall_test_matrix_h5\tall\t2890000\t0.00021696680407897592\t27654\t1.0\n+577\tsmall_test_matrix_h5\tall\t2895000\t0.0001808579903060117\t27646\t1.0\n+578\tsmall_test_matrix_h5\tall\t2900000\t7.236413633403285e-05\t27638\t1.0\n+579\tsmall_test_matrix_h5\tall\t2905000\t0.0002533478103510677\t27630\t1.0\n+580\tsmall_test_matrix_h5\tall\t2910000\t0.00010860907971906451\t27622\t1.0\n+581\tsmall_test_matrix_h5\tall\t2915000\t0.00010864054465126386\t27614\t1.0\n+582\tsmall_test_matrix_h5\tall\t2920000\t0.00021734405564007825\t27606\t1.0\n+583\tsmall_test_matrix_h5\tall\t2925000\t0.00010870352924124937\t27598\t1.0\n+584\tsmall_test_matrix_h5\tall\t2930000\t0.0001812250815512867\t27590\t1.0\n+585\tsmall_test_matrix_h5\tall\t2935000\t0.00010876658690450294\t27582\t1.0\n+586\tsmall_test_matrix_h5\tall\t2940000\t0.00014506419090447523\t27574\t1.0\n+587\tsmall_test_matrix_h5\tall\t2945000\t0.000290212580715374\t27566\t1.0\n+588\tsmall_test_matrix_h5\tall\t2950000\t0.0001451484142535743\t27558\t1.0\n+589\tsmall_test_matrix_h5\tall\t2955000\t0.00025408348457350274\t27550\t1.0\n+590\tsmall_test_matrix_h5\tall\t2960000\t0.00010892455159392927\t27542\t1.0\n+591\tsmall_test_matrix_h5\tall\t2965000\t7.263746640517178e-05\t27534\t1.0\n+592\tsmall_test_matrix_h5\tall\t2970000\t3.6329288672527794e-05\t27526\t1.0\n+593\tsmall_test_matrix_h5\tall\t2975000\t7.26797005596337e-05\t27518\t1.0\n+594\tsmall_test_matrix_h5\tall\t2980000\t0.00010905125408942203\t27510\t1.0\n+595\tsmall_test_matrix_h5\tall\t2985000\t0.00021816595156715876\t27502\t1.0\n+596\tsmall_test_matrix_h5\tall\t2990000\t0.00010911471593802284\t27494\t1.0\n+597\tsmall_test_matrix_h5\tall\t2995000\t0.00014552863275849522\t27486\t1.0\n+598\tsmall_test_matrix_h5\tall\t3000000\t0.00029114200451270107\t27478\t1.0\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/dm3_genes.bed.gz |
| b |
| Binary file test-data/dm3_genes.bed.gz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,498 @@\n+X\t73624\t98011\tID_2159\t0.24484225\t.\t73624\t98011\t31,120,180\n+X\t98011\t163162\tID_2160\t0.078244125\t.\t98011\t163162\t51,160,44\n+X\t163162\t173032\tID_2161\t0.1488125\t.\t163162\t173032\t31,120,180\n+X\t173032\t245055\tID_2162\t0.10021325\t.\t173032\t245055\t51,160,44\n+X\t245055\t256176\tID_2163\t0.24866425\t.\t245055\t256176\t31,120,180\n+X\t256176\t370742\tID_2164\t0.218105125\t.\t256176\t370742\t51,160,44\n+X\t370742\t387797\tID_2165\t0.09920975\t.\t370742\t387797\t31,120,180\n+X\t387797\t425626\tID_2166\t0.1315695\t.\t387797\t425626\t51,160,44\n+X\t425626\t511958\tID_2167\t0.12402975\t.\t425626\t511958\t31,120,180\n+X\t511958\t549785\tID_2168\t0.093640125\t.\t511958\t549785\t51,160,44\n+X\t549785\t653272\tID_2169\t0.067879125\t.\t549785\t653272\t31,120,180\n+X\t653272\t659365\tID_2170\t0.14385325\t.\t653272\t659365\t51,160,44\n+X\t659365\t695160\tID_2171\t0.145119\t.\t659365\t695160\t31,120,180\n+X\t695160\t762046\tID_2172\t0.136754875\t.\t695160\t762046\t51,160,44\n+X\t762046\t811178\tID_2173\t0.25650025\t.\t762046\t811178\t31,120,180\n+X\t811178\t835720\tID_2174\t0.202794625\t.\t811178\t835720\t51,160,44\n+X\t835720\t920690\tID_2175\t0.201687125\t.\t835720\t920690\t31,120,180\n+X\t920690\t950857\tID_2176\t0.16776375\t.\t920690\t950857\t51,160,44\n+X\t950857\t1129676\tID_2177\t0.16578775\t.\t950857\t1129676\t31,120,180\n+X\t1129676\t1182377\tID_2178\t0.125434875\t.\t1129676\t1182377\t51,160,44\n+X\t1182377\t1215679\tID_2179\t0.127644875\t.\t1182377\t1215679\t31,120,180\n+X\t1215679\t1235538\tID_2180\t0.22391225\t.\t1215679\t1235538\t51,160,44\n+X\t1235538\t1269714\tID_2181\t0.14388225\t.\t1235538\t1269714\t31,120,180\n+X\t1269714\t1275302\tID_2182\t0.167577875\t.\t1269714\t1275302\t51,160,44\n+X\t1275302\t1293467\tID_2183\t0.175340125\t.\t1275302\t1293467\t31,120,180\n+X\t1293467\t1348185\tID_2184\t0.148177125\t.\t1293467\t1348185\t51,160,44\n+X\t1348185\t1378848\tID_2185\t0.104369375\t.\t1348185\t1378848\t31,120,180\n+X\t1378848\t1417785\tID_2186\t0.055848375\t.\t1378848\t1417785\t51,160,44\n+X\t1417785\t1509963\tID_2187\t0.1912035\t.\t1417785\t1509963\t31,120,180\n+X\t1509963\t1559576\tID_2188\t0.2622635\t.\t1509963\t1559576\t51,160,44\n+X\t1559576\t1590437\tID_2189\t0.1759295\t.\t1559576\t1590437\t31,120,180\n+X\t1590437\t1666959\tID_2190\t0.194465875\t.\t1590437\t1666959\t51,160,44\n+X\t1666959\t1721470\tID_2191\t0.22292475\t.\t1666959\t1721470\t31,120,180\n+X\t1721470\t1736471\tID_2192\t0.16601325\t.\t1721470\t1736471\t51,160,44\n+X\t1736471\t1753234\tID_2193\t0.208370375\t.\t1736471\t1753234\t31,120,180\n+X\t1753234\t1771304\tID_2194\t0.132250375\t.\t1753234\t1771304\t51,160,44\n+X\t1771304\t1784093\tID_2195\t0.180027625\t.\t1771304\t1784093\t31,120,180\n+X\t1784093\t1794340\tID_2196\t0.177347375\t.\t1784093\t1794340\t51,160,44\n+X\t1794340\t1847331\tID_2197\t0.155302\t.\t1794340\t1847331\t31,120,180\n+X\t1847331\t1904345\tID_2198\t0.091353\t.\t1847331\t1904345\t51,160,44\n+X\t1904345\t1935891\tID_2199\t0.144274625\t.\t1904345\t1935891\t31,120,180\n+X\t1935891\t1965737\tID_2200\t0.19876325\t.\t1935891\t1965737\t51,160,44\n+X\t1965737\t1988470\tID_2201\t0.0987945\t.\t1965737\t1988470\t31,120,180\n+X\t1988470\t2015677\tID_2202\t0.126307125\t.\t1988470\t2015677\t51,160,44\n+X\t2015677\t2039288\tID_2203\t0.11469475\t.\t2015677\t2039288\t31,120,180\n+X\t2039288\t2053111\tID_2204\t0.11339725\t.\t2039288\t2053111\t51,160,44\n+X\t2053111\t2066003\tID_2205\t0.092177375\t.\t2053111\t2066003\t31,120,180\n+X\t2066003\t2116316\tID_2206\t0.14135825\t.\t2066003\t2116316\t51,160,44\n+X\t2116316\t2136020\tID_2207\t0.13430075\t.\t2116316\t2136020\t31,120,180\n+X\t2136020\t2164365\tID_2208\t0.194079625\t.\t2136020\t2164365\t51,160,44\n+X\t2164365\t2169170\tID_2209\t0.11761975\t.\t2164365\t2169170\t31,120,180\n+X\t2169170\t2179239\tID_2210\t0.132970125\t.\t2169170\t2179239\t51,160,44\n+X\t2179239\t2234701\tID_2211\t0.159815375\t.\t2179239\t2234701\t31,120,180\n+X\t2234701\t2238520\tID_2212\t0.127241125\t.\t2234701\t2238520\t51,160,44\n+X\t2238520\t2280041\tID_2213\t0.125103375\t.\t2238520\t2280041\t31,120,180\n+X\t2280041\t2318567\tID_2214\t0.270983375\t.\t2280041\t2318567\t51,160,44\n+X\t2318567\t2338007\tID_2215\t0.167261375\t.\t2318567\t2338007\t31,120,180\n+X\t2338007\t2477307\tID_2216\t0.150055375\t.\t2338007\t2477307\t51,160,44\n+X\t2477307\t2508070\tID_2217\t0.103612\t.\t2477307\t2508070\t31,120,180\n+X\t2508070\t2528894\tID_2218\t0.156815\t.\t2508070\t2528894\t51,160,44\n+X\t2528894\t2557128\tID_2219\t0.0914065\t.\t2528894\t2557128\t31'..b'9416481\tID_2600\t0.21749325\t.\t19399952\t19416481\t51,160,44\n+X\t19416481\t19456185\tID_2601\t0.185489875\t.\t19416481\t19456185\t31,120,180\n+X\t19456185\t19473065\tID_2602\t0.188489875\t.\t19456185\t19473065\t51,160,44\n+X\t19473065\t19491987\tID_2603\t0.152931125\t.\t19473065\t19491987\t31,120,180\n+X\t19491987\t19507538\tID_2604\t0.12015975\t.\t19491987\t19507538\t51,160,44\n+X\t19507538\t19531934\tID_2605\t0.159455125\t.\t19507538\t19531934\t31,120,180\n+X\t19531934\t19557899\tID_2606\t0.1147575\t.\t19531934\t19557899\t51,160,44\n+X\t19557899\t19577569\tID_2607\t0.14880575\t.\t19557899\t19577569\t31,120,180\n+X\t19577569\t19607671\tID_2608\t0.170184125\t.\t19577569\t19607671\t51,160,44\n+X\t19607671\t19625150\tID_2609\t0.12170925\t.\t19607671\t19625150\t31,120,180\n+X\t19625150\t19639107\tID_2610\t0.18795025\t.\t19625150\t19639107\t51,160,44\n+X\t19639107\t19644907\tID_2611\t0.1373115\t.\t19639107\t19644907\t31,120,180\n+X\t19644907\t19657054\tID_2612\t0.136064375\t.\t19644907\t19657054\t51,160,44\n+X\t19657054\t19686912\tID_2613\t0.11615975\t.\t19657054\t19686912\t31,120,180\n+X\t19686912\t19745861\tID_2614\t0.280371875\t.\t19686912\t19745861\t51,160,44\n+X\t19745861\t19760530\tID_2615\t0.126236875\t.\t19745861\t19760530\t31,120,180\n+X\t19760530\t19815382\tID_2616\t0.120401125\t.\t19760530\t19815382\t51,160,44\n+X\t19815382\t19987457\tID_2617\t0.07716825\t.\t19815382\t19987457\t31,120,180\n+X\t19987457\t20054086\tID_2618\t0.25898975\t.\t19987457\t20054086\t51,160,44\n+X\t20054086\t20068910\tID_2619\t0.09501175\t.\t20054086\t20068910\t31,120,180\n+X\t20068910\t20125761\tID_2620\t0.11080175\t.\t20068910\t20125761\t51,160,44\n+X\t20125761\t20262048\tID_2621\t0.13531825\t.\t20125761\t20262048\t31,120,180\n+X\t20262048\t20294608\tID_2622\t0.128170125\t.\t20262048\t20294608\t51,160,44\n+X\t20294608\t20305771\tID_2623\t0.174142\t.\t20294608\t20305771\t31,120,180\n+X\t20305771\t20339275\tID_2624\t0.132944375\t.\t20305771\t20339275\t51,160,44\n+X\t20339275\t20382809\tID_2625\t0.171998625\t.\t20339275\t20382809\t31,120,180\n+X\t20382809\t20395830\tID_2626\t0.167720375\t.\t20382809\t20395830\t51,160,44\n+X\t20395830\t20508892\tID_2627\t0.099498875\t.\t20395830\t20508892\t31,120,180\n+X\t20508892\t20526971\tID_2628\t0.207408875\t.\t20508892\t20526971\t51,160,44\n+X\t20526971\t20631727\tID_2629\t0.234505875\t.\t20526971\t20631727\t31,120,180\n+X\t20631727\t20894364\tID_2630\t0.1618915\t.\t20631727\t20894364\t51,160,44\n+X\t20894364\t20907117\tID_2631\t0.115476\t.\t20894364\t20907117\t31,120,180\n+X\t20907117\t20916940\tID_2632\t0.131365625\t.\t20907117\t20916940\t51,160,44\n+X\t20916940\t20931445\tID_2633\t0.13657475\t.\t20916940\t20931445\t31,120,180\n+X\t20931445\t20944384\tID_2634\t0.08793725\t.\t20931445\t20944384\t51,160,44\n+X\t20944384\t20996348\tID_2635\t0.1540235\t.\t20944384\t20996348\t31,120,180\n+X\t20996348\t21012072\tID_2636\t0.20320025\t.\t20996348\t21012072\t51,160,44\n+X\t21012072\t21178100\tID_2637\t0.226353125\t.\t21012072\t21178100\t31,120,180\n+X\t21178100\t21186628\tID_2638\t0.157524\t.\t21178100\t21186628\t51,160,44\n+X\t21186628\t21194946\tID_2639\t0.1443005\t.\t21186628\t21194946\t31,120,180\n+X\t21194946\t21220857\tID_2640\t0.1486745\t.\t21194946\t21220857\t51,160,44\n+X\t21220857\t21240098\tID_2641\t0.130596\t.\t21220857\t21240098\t31,120,180\n+X\t21240098\t21271964\tID_2642\t0.097698\t.\t21240098\t21271964\t51,160,44\n+X\t21271964\t21343699\tID_2643\t0.154854\t.\t21271964\t21343699\t31,120,180\n+X\t21343699\t21656357\tID_2644\t0.308289\t.\t21343699\t21656357\t51,160,44\n+X\t21656357\t21857607\tID_2645\t0.011076375\t.\t21656357\t21857607\t31,120,180\n+X\t21857607\t21873688\tID_2646\t0.156261\t.\t21857607\t21873688\t51,160,44\n+X\t21873688\t21889804\tID_2647\t0.177314875\t.\t21873688\t21889804\t31,120,180\n+X\t21889804\t21907001\tID_2648\t0.1288\t.\t21889804\t21907001\t51,160,44\n+X\t21907001\t21931844\tID_2649\t0.2055825\t.\t21907001\t21931844\t31,120,180\n+X\t21931844\t21954371\tID_2650\t0.210974875\t.\t21931844\t21954371\t51,160,44\n+X\t21954371\t22120033\tID_2651\t0.145109\t.\t21954371\t22120033\t31,120,180\n+X\t22120033\t22274227\tID_2652\t0.293565625\t.\t22120033\t22274227\t51,160,44\n+X\t22274227\t22287785\tID_2653\t0.224372\t.\t22274227\t22287785\t31,120,180\n+X\t22287785\t22349277\tID_2654\t0.227037375\t.\t22287785\t22349277\t51,160,44\n+X\t22349277\t22380885\tID_2655\t0.190254625\t.\t22349277\t22380885\t31,120,180\n+X\t22380885\t22421267\tID_2656\t0.153354125\t.\t22380885\t22421267\t51,160,44\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/find_TADs/multiFDR_tad_score.bm --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/find_TADs/multiFDR_tad_score.bm Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,24113 @@\n+#{"step":15000,"minDepth":15000,"maxDepth":30000,"binsize":5000}\n+chr2L\t0\t5000\t0.000000\t0.000000\n+chr2L\t5000\t10000\t-0.260846\t-0.229327\n+chr2L\t10000\t15000\t-0.244737\t-0.217294\n+chr2L\t15000\t20000\t0.038826\t0.457739\n+chr2L\t20000\t25000\t0.248816\t0.195739\n+chr2L\t25000\t30000\t0.248816\t0.322439\n+chr2L\t30000\t35000\t-0.234167\t0.241686\n+chr2L\t35000\t40000\t0.480531\t0.299615\n+chr2L\t40000\t45000\t0.207538\t0.213937\n+chr2L\t45000\t50000\t0.207538\t0.234405\n+chr2L\t50000\t55000\t0.038826\t0.192227\n+chr2L\t55000\t60000\t0.207538\t0.234405\n+chr2L\t60000\t65000\t0.207538\t0.234405\n+chr2L\t65000\t70000\t0.207538\t0.099412\n+chr2L\t70000\t75000\t-0.234167\t-0.189929\n+chr2L\t75000\t80000\t-0.234167\t-0.057202\n+chr2L\t80000\t85000\t-0.234167\t-0.057202\n+chr2L\t85000\t90000\t0.296739\t0.075525\n+chr2L\t90000\t95000\t0.176728\t0.178248\n+chr2L\t95000\t100000\t0.707634\t0.178248\n+chr2L\t100000\t105000\t0.038826\t0.011046\n+chr2L\t105000\t110000\t-0.234167\t-0.057202\n+chr2L\t110000\t115000\t-0.234167\t-0.069183\n+chr2L\t115000\t120000\t0.248816\t0.075082\n+chr2L\t120000\t125000\t0.248816\t0.075082\n+chr2L\t125000\t130000\t-0.234167\t0.075082\n+chr2L\t130000\t135000\t0.176728\t0.057060\n+chr2L\t135000\t140000\t0.176728\t0.057060\n+chr2L\t140000\t145000\t0.207538\t0.064762\n+chr2L\t145000\t150000\t0.753523\t0.221726\n+chr2L\t150000\t155000\t0.207538\t0.085230\n+chr2L\t155000\t160000\t-0.234167\t-0.025196\n+chr2L\t160000\t165000\t-0.234167\t-0.025196\n+chr2L\t165000\t170000\t-0.234167\t0.063544\n+chr2L\t170000\t175000\t0.248816\t0.063544\n+chr2L\t175000\t180000\t0.779722\t0.063544\n+chr2L\t180000\t185000\t0.207538\t0.173970\n+chr2L\t185000\t190000\t0.618432\t0.155948\n+chr2L\t190000\t195000\t0.618432\t0.023221\n+chr2L\t195000\t200000\t-0.234167\t-0.189929\n+chr2L\t200000\t205000\t0.038826\t-0.121680\n+chr2L\t205000\t210000\t-0.234167\t-0.069183\n+chr2L\t210000\t215000\t0.248816\t-0.069183\n+chr2L\t215000\t220000\t0.248816\t0.374742\n+chr2L\t220000\t225000\t0.248816\t0.195827\n+chr2L\t225000\t230000\t0.248816\t0.195827\n+chr2L\t230000\t235000\t0.248816\t0.195827\n+chr2L\t235000\t240000\t0.248816\t0.075082\n+chr2L\t240000\t245000\t-0.234167\t0.075082\n+chr2L\t245000\t250000\t-0.234167\t-0.045664\n+chr2L\t250000\t255000\t-0.234167\t0.103511\n+chr2L\t255000\t260000\t0.176728\t0.206234\n+chr2L\t260000\t265000\t0.176728\t0.206234\n+chr2L\t265000\t270000\t0.480531\t0.426450\n+chr2L\t270000\t275000\t0.207538\t0.358202\n+chr2L\t275000\t280000\t0.207538\t0.064762\n+chr2L\t280000\t285000\t-0.234167\t-0.045664\n+chr2L\t285000\t290000\t0.176728\t0.057060\n+chr2L\t290000\t295000\t0.176728\t0.206234\n+chr2L\t295000\t300000\t-0.234167\t-0.040754\n+chr2L\t300000\t305000\t-0.234167\t-0.040754\n+chr2L\t305000\t310000\t0.587622\t0.164693\n+chr2L\t310000\t315000\t0.587622\t0.164693\n+chr2L\t315000\t320000\t0.038826\t0.011046\n+chr2L\t320000\t325000\t0.449720\t0.113770\n+chr2L\t325000\t330000\t0.707634\t0.045522\n+chr2L\t330000\t335000\t-0.234167\t-0.057202\n+chr2L\t335000\t340000\t-0.234167\t-0.057202\n+chr2L\t340000\t345000\t-0.234167\t-0.189929\n+chr2L\t345000\t350000\t-0.234167\t-0.189929\n+chr2L\t350000\t355000\t-0.234167\t-0.025196\n+chr2L\t355000\t360000\t-0.234167\t-0.025196\n+chr2L\t360000\t365000\t-0.234167\t-0.025196\n+chr2L\t365000\t370000\t-0.234167\t-0.025196\n+chr2L\t370000\t375000\t0.176728\t-0.087205\n+chr2L\t375000\t380000\t0.176728\t-0.087205\n+chr2L\t380000\t385000\t0.176728\t-0.087205\n+chr2L\t385000\t390000\t0.618432\t0.023221\n+chr2L\t390000\t395000\t0.207538\t-0.079502\n+chr2L\t395000\t400000\t0.207538\t-0.079502\n+chr2L\t400000\t405000\t-0.234167\t-0.057202\n+chr2L\t405000\t410000\t0.038826\t0.011046\n+chr2L\t410000\t415000\t0.738444\t0.197489\n+chr2L\t415000\t420000\t0.207538\t0.197489\n+chr2L\t420000\t425000\t0.207538\t0.197489\n+chr2L\t425000\t430000\t0.480531\t0.299615\n+chr2L\t430000\t435000\t0.207538\t0.352112\n+chr2L\t435000\t440000\t0.690520\t0.352112\n+chr2L\t440000\t445000\t0.248816\t-0.069183\n+chr2L\t445000\t450000\t-0.234167\t-0.069183\n+chr2L\t450000\t455000\t0.176728\t-0.087205\n+chr2L\t455000\t460000\t0.176728\t-0.087205\n+chr2L\t460000\t465000\t-0.234167\t-0.069183\n+chr2L\t465000\t470000\t0.248816\t0.097421\n+chr2L\t470000\t475000\t0.248816\t0.097421\n+chr2L\t475000\t480000\t0.038826\t0.165669\n+chr2L\t480000\t485000\t0.618432\t0.023221\n+chr2L\t485000\t490000\t0.618432\t0.023221\n+chr2L\t490000\t495000\t1.026516\t0.125242\n+chr2L\t495000\t500000\t-0.234167'..b'36915\t-0.109242\n+chrX\t21985000\t21990000\t-0.136915\t-0.109242\n+chrX\t21990000\t21995000\t-0.136915\t-0.109242\n+chrX\t21995000\t22000000\t-0.136915\t-0.109242\n+chrX\t22000000\t22005000\t-0.136915\t-0.109242\n+chrX\t22005000\t22010000\t-0.136915\t-0.109242\n+chrX\t22010000\t22015000\t-0.136915\t-0.109242\n+chrX\t22015000\t22020000\t-0.136915\t-0.109242\n+chrX\t22020000\t22025000\t-0.136915\t-0.109242\n+chrX\t22025000\t22030000\t-0.136915\t-0.109242\n+chrX\t22030000\t22035000\t-0.136915\t-0.109242\n+chrX\t22035000\t22040000\t-0.136915\t-0.109242\n+chrX\t22040000\t22045000\t0.350063\t0.279396\n+chrX\t22045000\t22050000\t0.523235\t0.322689\n+chrX\t22050000\t22055000\t0.523235\t0.545035\n+chrX\t22055000\t22060000\t0.752470\t0.379998\n+chrX\t22060000\t22065000\t1.239449\t0.501742\n+chrX\t22065000\t22070000\t-0.136915\t0.113104\n+chrX\t22070000\t22075000\t-0.136915\t-0.109242\n+chrX\t22075000\t22080000\t-0.136915\t-0.109242\n+chrX\t22080000\t22085000\t-0.136915\t-0.109242\n+chrX\t22085000\t22090000\t-0.136915\t-0.109242\n+chrX\t22090000\t22095000\t-0.136915\t-0.109242\n+chrX\t22095000\t22100000\t-0.136915\t-0.109242\n+chrX\t22100000\t22105000\t-0.136915\t-0.109242\n+chrX\t22105000\t22110000\t-0.136915\t-0.109242\n+chrX\t22110000\t22115000\t0.350063\t0.012502\n+chrX\t22115000\t22120000\t-0.136915\t-0.109242\n+chrX\t22120000\t22125000\t-0.136915\t-0.109242\n+chrX\t22125000\t22130000\t-0.136915\t-0.109242\n+chrX\t22130000\t22135000\t-0.136915\t-0.109242\n+chrX\t22135000\t22140000\t-0.136915\t-0.109242\n+chrX\t22140000\t22145000\t-0.136915\t0.189680\n+chrX\t22145000\t22150000\t-0.136915\t0.189680\n+chrX\t22150000\t22155000\t-0.136915\t0.189680\n+chrX\t22155000\t22160000\t-0.136915\t0.189680\n+chrX\t22160000\t22165000\t-0.136915\t-0.109242\n+chrX\t22165000\t22170000\t0.350063\t0.307503\n+chrX\t22170000\t22175000\t-0.136915\t0.185758\n+chrX\t22175000\t22180000\t-0.136915\t-0.109242\n+chrX\t22180000\t22185000\t-0.136915\t-0.109242\n+chrX\t22185000\t22190000\t-0.136915\t-0.109242\n+chrX\t22190000\t22195000\t-0.136915\t-0.109242\n+chrX\t22195000\t22200000\t-0.136915\t0.201541\n+chrX\t22200000\t22205000\t-0.136915\t-0.109242\n+chrX\t22205000\t22210000\t-0.136915\t-0.109242\n+chrX\t22210000\t22215000\t-0.136915\t-0.109242\n+chrX\t22215000\t22220000\t-0.136915\t-0.109242\n+chrX\t22220000\t22225000\t-0.136915\t-0.109242\n+chrX\t22225000\t22230000\t-0.136915\t-0.109242\n+chrX\t22230000\t22235000\t-0.136915\t-0.109242\n+chrX\t22235000\t22240000\t-0.136915\t0.189680\n+chrX\t22240000\t22245000\t-0.136915\t0.189680\n+chrX\t22245000\t22250000\t-0.136915\t0.189680\n+chrX\t22250000\t22255000\t-0.136915\t0.189680\n+chrX\t22255000\t22260000\t-0.136915\t-0.109242\n+chrX\t22260000\t22265000\t-0.136915\t-0.109242\n+chrX\t22265000\t22270000\t-0.136915\t-0.109242\n+chrX\t22270000\t22275000\t-0.136915\t-0.109242\n+chrX\t22275000\t22280000\t-0.136915\t-0.109242\n+chrX\t22280000\t22285000\t-0.136915\t-0.109242\n+chrX\t22285000\t22290000\t-0.136915\t-0.109242\n+chrX\t22290000\t22295000\t-0.136915\t-0.109242\n+chrX\t22295000\t22300000\t-0.136915\t-0.109242\n+chrX\t22300000\t22305000\t-0.136915\t0.185758\n+chrX\t22305000\t22310000\t-0.136915\t0.492652\n+chrX\t22310000\t22315000\t-0.136915\t0.197652\n+chrX\t22315000\t22320000\t-0.136915\t0.197652\n+chrX\t22320000\t22325000\t0.523235\t0.585035\n+chrX\t22325000\t22330000\t1.412620\t0.585035\n+chrX\t22330000\t22335000\t1.412620\t0.585035\n+chrX\t22335000\t22340000\t0.523235\t0.278141\n+chrX\t22340000\t22345000\t-0.136915\t-0.109242\n+chrX\t22345000\t22350000\t-0.136915\t-0.109242\n+chrX\t22350000\t22355000\t-0.136915\t-0.109242\n+chrX\t22355000\t22360000\t-0.136915\t-0.109242\n+chrX\t22360000\t22365000\t-0.136915\t-0.109242\n+chrX\t22365000\t22370000\t-0.136915\t-0.109242\n+chrX\t22370000\t22375000\t-0.136915\t-0.109242\n+chrX\t22375000\t22380000\t-0.136915\t-0.109242\n+chrX\t22380000\t22385000\t-0.136915\t-0.109242\n+chrX\t22385000\t22390000\t-0.136915\t-0.109242\n+chrX\t22390000\t22395000\t-0.136915\t-0.109242\n+chrX\t22395000\t22400000\t-0.136915\t-0.112436\n+chrX\t22400000\t22405000\t-0.136915\t-0.115915\n+chrX\t22405000\t22410000\t-0.136915\t-0.119875\n+chrX\t22410000\t22415000\t-0.144847\t-0.125728\n+chrX\t22415000\t22420000\t-0.156233\t-0.133289\n+chrX\t22420000\t22422827\t0.000000\t0.000000\n+chrXHet\t0\t5000\t0.000000\t0.000000\n+chrXHet\t200000\t204112\t0.000000\t0.000000\n+chrYHet\t0\t5000\t0.000000\t0.000000\n+chrYHet\t345000\t347038\t0.000000\t0.000000\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/find_TADs/multiFDR_zscore_matrix.h5 |
| b |
| Binary file test-data/find_TADs/multiFDR_zscore_matrix.h5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicAggregateContacts/test_regions.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicAggregateContacts/test_regions.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,55 @@ +2R 5441451 5441452 msl2_peak_1532 9.54697 +2R 8291271 8291272 msl2_peak_1644 7.36770 +2R 14575573 14575574 msl2_peak_1947 4.41313 +3L 628463 628464 msl2_peak_2780 11.60203 +3L 3903421 3903422 msl2_peak_2958 4.32242 +3L 8759529 8759530 msl2_peak_3195 4.10429 +3R 2901523 2901524 msl2_peak_4559 2.22040 +3R 3932152 3932153 msl2_peak_4603 9.59945 +3R 11851634 11851635 msl2_peak_4969 8.43238 +3R 20545331 20545332 msl2_peak_5267 4.72876 +X 147841 147842 msl2_peak_22671 16.59036 +X 366894 366895 msl2_peak_22686 25.37647 +X 517100 517101 msl2_peak_22694 8.54298 +X 548547 548548 msl2_peak_22696 27.53758 +X 656427 656428 msl2_peak_22697 14.11897 +X 692287 692288 msl2_peak_22698 15.96065 +X 818016 818017 msl2_peak_22713 10.66184 +X 937135 937136 msl2_peak_22717 67.84654 +X 1112721 1112722 msl2_peak_22727 26.81313 +X 1268823 1268824 msl2_peak_22735 29.73846 +X 1356647 1356648 msl2_peak_22736 9.58288 +X 1375009 1375010 msl2_peak_22738 4.49598 +X 1375616 1375617 msl2_peak_22739 128.36397 +X 1409093 1409094 msl2_peak_22742 14.72497 +X 1588015 1588016 msl2_peak_22757 102.61334 +X 1679121 1679122 msl2_peak_22767 16.12354 +X 1754043 1754044 msl2_peak_22769 20.51431 +X 1775025 1775026 msl2_peak_22773 43.05813 +X 1787755 1787756 msl2_peak_22774 142.73460 +X 1798236 1798237 msl2_peak_22775 80.66115 +X 1819545 1819546 msl2_peak_22777 11.21560 +X 1918989 1918990 msl2_peak_22793 74.48118 +X 1956476 1956477 msl2_peak_22794 32.73601 +X 1972291 1972292 msl2_peak_22795 37.39349 +X 2007235 2007236 msl2_peak_22798 11.21560 +X 2015927 2015928 msl2_peak_22799 68.80555 +X 2044335 2044336 msl2_peak_22804 36.60362 +X 2050114 2050115 msl2_peak_22805 47.23102 +X 2072937 2072938 msl2_peak_22807 52.37415 +X 2126007 2126008 msl2_peak_22808 42.23372 +X 2162302 2162303 msl2_peak_22810 78.64520 +X 2237610 2237611 msl2_peak_22817 43.05813 +X 2340287 2340288 msl2_peak_22825 14.72497 +X 2493295 2493296 msl2_peak_22827 23.47760 +X 2503119 2503120 msl2_peak_22828 80.83590 +X 2520611 2520612 msl2_peak_22839 17.87077 +X 2521079 2521080 msl2_peak_22840 60.08352 +X 2613112 2613113 msl2_peak_22844 43.87985 +X 2628624 2628625 msl2_peak_22847 115.37079 +X 3382405 3382406 msl2_peak_22879 6.13203 +X 3593688 3593689 msl2_peak_22908 10.66184 +X 3596515 3596516 msl2_peak_22909 6.59200 +X 3755342 3755343 msl2_peak_22919 164.76546 +X 3848197 3848198 msl2_peak_22920 74.65739 +X 4021813 4021814 msl2_peak_22929 32.73601 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicAggregateContacts_results1.png |
| b |
| Binary file test-data/hicAggregateContacts_results1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicAverageRegions/regions.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicAverageRegions/regions.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,6 @@ +chr2L 2500000 +chr2L 3500000 +chr2L 4500000 +chr2L 5500000 +chr2L 7000000 +chr2L 19000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicAverageRegions/result.npz |
| b |
| Binary file test-data/hicAverageRegions/result.npz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicAverageRegions/result_rangeInBins_100.npz |
| b |
| Binary file test-data/hicAverageRegions/result_rangeInBins_100.npz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicAverageRegions/result_range_100000.npz |
| b |
| Binary file test-data/hicAverageRegions/result_range_100000.npz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCompartmentsPolarization/compartmentsPolarizationRatio.png |
| b |
| Binary file test-data/hicCompartmentsPolarization/compartmentsPolarizationRatio.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCompartmentsPolarization/output_matrix.npz |
| b |
| Binary file test-data/hicCompartmentsPolarization/output_matrix.npz has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCompartmentsPolarization/pca1.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicCompartmentsPolarization/pca1.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,449 @@\n+chrX\t0\t50000\t-0.001950268891\n+chrX\t50000\t100000\t0.004039333365\n+chrX\t150000\t200000\t-0.004150079458\n+chrX\t200000\t250000\t0.077532321648\n+chrX\t250000\t300000\t0.013162235059\n+chrX\t300000\t350000\t-0.010570170513\n+chrX\t350000\t400000\t-0.006386912627\n+chrX\t400000\t450000\t0.000348354523\n+chrX\t450000\t500000\t-0.002191464759\n+chrX\t500000\t550000\t0.034823907107\n+chrX\t550000\t600000\t-0.001240094255\n+chrX\t600000\t650000\t-0.000229749119\n+chrX\t650000\t700000\t-0.006317260062\n+chrX\t700000\t750000\t-0.002565261791\n+chrX\t750000\t800000\t-0.004311642764\n+chrX\t800000\t850000\t0.041284600526\n+chrX\t850000\t900000\t-0.001206205197\n+chrX\t900000\t950000\t0.004206457668\n+chrX\t950000\t1000000\t0.000000000000\n+chrX\t1000000\t1050000\t-0.002344340704\n+chrX\t1050000\t1100000\t-0.003197692841\n+chrX\t1100000\t1150000\t0.004195129694\n+chrX\t1150000\t1200000\t0.000621806104\n+chrX\t1200000\t1250000\t-0.003285597309\n+chrX\t1250000\t1300000\t0.076828548177\n+chrX\t1300000\t1350000\t-0.010697220075\n+chrX\t1350000\t1400000\t0.416262439056\n+chrX\t1400000\t1450000\t-0.009560094422\n+chrX\t1450000\t1500000\t0.000365175544\n+chrX\t1500000\t1550000\t-0.004096594539\n+chrX\t1550000\t1600000\t0.031524755415\n+chrX\t1600000\t1650000\t-0.004378928052\n+chrX\t1650000\t1700000\t-0.003028959081\n+chrX\t1700000\t1750000\t0.000462699373\n+chrX\t1750000\t1800000\t-0.003895237855\n+chrX\t1800000\t1850000\t-0.011390750254\n+chrX\t1850000\t1900000\t-0.019371497852\n+chrX\t1900000\t1950000\t-0.019303635122\n+chrX\t1950000\t2000000\t-0.003072862657\n+chrX\t2000000\t2050000\t0.426941553649\n+chrX\t2050000\t2100000\t-0.008142799642\n+chrX\t2100000\t2150000\t-0.005175407952\n+chrX\t2150000\t2200000\t-0.004879520091\n+chrX\t2200000\t2250000\t0.003878381414\n+chrX\t2250000\t2300000\t-0.010525540521\n+chrX\t2300000\t2350000\t-0.006908266316\n+chrX\t2350000\t2400000\t-0.016957291626\n+chrX\t2400000\t2450000\t-0.011568145873\n+chrX\t2450000\t2500000\t-0.002393277901\n+chrX\t2500000\t2550000\t-0.004360707817\n+chrX\t2550000\t2600000\t0.009573130188\n+chrX\t2600000\t2650000\t0.018342700509\n+chrX\t2650000\t2700000\t-0.005767802666\n+chrX\t2700000\t2750000\t-0.005017890458\n+chrX\t2750000\t2800000\t0.006550346751\n+chrX\t2800000\t2850000\t-0.003855852841\n+chrX\t2850000\t2900000\t-0.008714181700\n+chrX\t2900000\t2950000\t-0.028685776873\n+chrX\t2950000\t3000000\t-0.002385659352\n+chrX\t3000000\t3050000\t-0.003655480667\n+chrX\t3050000\t3100000\t-0.032800223632\n+chrX\t3100000\t3150000\t-0.003747377987\n+chrX\t3150000\t3200000\t-0.017915223328\n+chrX\t3200000\t3250000\t-0.003754593793\n+chrX\t3250000\t3300000\t-0.004671494041\n+chrX\t3300000\t3350000\t-0.006455053039\n+chrX\t3350000\t3400000\t-0.008604273625\n+chrX\t3400000\t3450000\t-0.003040237722\n+chrX\t3450000\t3500000\t-0.004303299624\n+chrX\t3500000\t3550000\t-0.004902250248\n+chrX\t3550000\t3600000\t-0.004581094820\n+chrX\t3600000\t3650000\t0.019156317567\n+chrX\t3650000\t3700000\t-0.002166080628\n+chrX\t3700000\t3750000\t-0.000481896350\n+chrX\t3750000\t3800000\t-0.009569770797\n+chrX\t3800000\t3850000\t-0.003338969958\n+chrX\t3850000\t3900000\t-0.011773255276\n+chrX\t3900000\t3950000\t-0.008847512200\n+chrX\t3950000\t4000000\t-0.007784475913\n+chrX\t4000000\t4050000\t-0.001558790514\n+chrX\t4050000\t4100000\t-0.009136763597\n+chrX\t4100000\t4150000\t0.004393960600\n+chrX\t4150000\t4200000\t-0.010129062603\n+chrX\t4200000\t4250000\t-0.003471639817\n+chrX\t4250000\t4300000\t-0.030715717878\n+chrX\t4300000\t4350000\t-0.001707151907\n+chrX\t4350000\t4400000\t0.040416368868\n+chrX\t4400000\t4450000\t-0.006496816404\n+chrX\t4450000\t4500000\t-0.004509415975\n+chrX\t4500000\t4550000\t-0.003751041995\n+chrX\t4550000\t4600000\t-0.001721307777\n+chrX\t4600000\t4650000\t-0.016064202375\n+chrX\t4650000\t4700000\t-0.004886880327\n+chrX\t4700000\t4750000\t-0.009686363742\n+chrX\t4750000\t4800000\t-0.004757063036\n+chrX\t4800000\t4850000\t-0.000291087448\n+chrX\t4850000\t4900000\t-0.009414513708\n+chrX\t4900000\t4950000\t0.006904458726\n+chrX\t4950000\t5000000\t-0.000209215809\n+chrX\t5000000\t5050000\t-0.004828582394\n+chrX\t5050000\t5100000\t-0.004968977275\n+chrX\t5100000\t5150000\t-0.001178977521\n+chrX\t5150000\t5200000\t-0.006528513078\n+chrX\t5200000\t5250000\t0.043603051711\n+chrX\t5250000\t5300000\t-0.008545750187\n+chrX\t5300000\t5350000\t0.004704260708\n+chrX\t5350000\t5400000\t-'..b'0000\t17500000\t0.026176829549\n+chrX\t17500000\t17550000\t-0.007676818502\n+chrX\t17550000\t17600000\t-0.010194895446\n+chrX\t17600000\t17650000\t0.003272666853\n+chrX\t17650000\t17700000\t-0.008543963076\n+chrX\t17700000\t17750000\t-0.033067814804\n+chrX\t17750000\t17800000\t-0.005216617982\n+chrX\t17800000\t17850000\t-0.007128902326\n+chrX\t17850000\t17900000\t0.004491811817\n+chrX\t17900000\t17950000\t-0.009182273159\n+chrX\t17950000\t18000000\t-0.001411096233\n+chrX\t18000000\t18050000\t-0.012135159354\n+chrX\t18050000\t18100000\t-0.012889660944\n+chrX\t18100000\t18150000\t-0.011600603087\n+chrX\t18150000\t18200000\t-0.002783990355\n+chrX\t18200000\t18250000\t-0.004049922767\n+chrX\t18250000\t18300000\t-0.003809328569\n+chrX\t18300000\t18350000\t-0.001981026029\n+chrX\t18350000\t18400000\t0.009114374027\n+chrX\t18400000\t18450000\t-0.003819231590\n+chrX\t18450000\t18500000\t-0.015875671966\n+chrX\t18500000\t18550000\t-0.002489442945\n+chrX\t18550000\t18600000\t-0.005267679819\n+chrX\t18600000\t18650000\t-0.005137813667\n+chrX\t18650000\t18700000\t0.000952856827\n+chrX\t18700000\t18750000\t-0.013910874190\n+chrX\t18750000\t18800000\t-0.012123009185\n+chrX\t18800000\t18850000\t-0.007538538144\n+chrX\t18850000\t18900000\t-0.003668466069\n+chrX\t18900000\t18950000\t-0.011925135389\n+chrX\t18950000\t19000000\t0.000663835810\n+chrX\t19000000\t19050000\t-0.005829240341\n+chrX\t19050000\t19100000\t0.008455719900\n+chrX\t19100000\t19150000\t-0.010811696304\n+chrX\t19150000\t19200000\t-0.005968135017\n+chrX\t19200000\t19250000\t-0.003232695436\n+chrX\t19250000\t19300000\t-0.000015686406\n+chrX\t19300000\t19350000\t-0.003128615981\n+chrX\t19350000\t19400000\t-0.003203152238\n+chrX\t19400000\t19450000\t-0.003764554364\n+chrX\t19450000\t19500000\t-0.002403681148\n+chrX\t19500000\t19550000\t0.005425385755\n+chrX\t19550000\t19600000\t-0.016571619789\n+chrX\t19600000\t19650000\t-0.002656867028\n+chrX\t19650000\t19700000\t-0.014794729718\n+chrX\t19700000\t19750000\t-0.005658424837\n+chrX\t19750000\t19800000\t0.001090613488\n+chrX\t19800000\t19850000\t-0.005070736648\n+chrX\t19850000\t19900000\t-0.023701433181\n+chrX\t19900000\t19950000\t0.022056014970\n+chrX\t19950000\t20000000\t-0.005472350746\n+chrX\t20000000\t20050000\t-0.006526748195\n+chrX\t20050000\t20100000\t-0.004537628831\n+chrX\t20100000\t20150000\t-0.004054836753\n+chrX\t20150000\t20200000\t-0.001042600796\n+chrX\t20200000\t20250000\t-0.004783296645\n+chrX\t20250000\t20300000\t-0.003251957151\n+chrX\t20300000\t20350000\t0.054661022316\n+chrX\t20350000\t20400000\t-0.003961439372\n+chrX\t20400000\t20450000\t-0.005281811188\n+chrX\t20450000\t20500000\t-0.005204549361\n+chrX\t20500000\t20550000\t-0.004739600508\n+chrX\t20550000\t20600000\t-0.001486223614\n+chrX\t20600000\t20650000\t-0.003893437681\n+chrX\t20650000\t20700000\t-0.005909648304\n+chrX\t20700000\t20750000\t-0.004901728963\n+chrX\t20750000\t20800000\t-0.022366323681\n+chrX\t20800000\t20850000\t-0.014851220883\n+chrX\t20850000\t20900000\t-0.005979228301\n+chrX\t20900000\t20950000\t-0.002678465469\n+chrX\t20950000\t21000000\t-0.000837267099\n+chrX\t21000000\t21050000\t-0.005240758707\n+chrX\t21050000\t21100000\t0.008094281576\n+chrX\t21100000\t21150000\t-0.012173892530\n+chrX\t21150000\t21200000\t-0.009963024884\n+chrX\t21200000\t21250000\t-0.007099167097\n+chrX\t21250000\t21300000\t-0.027394159923\n+chrX\t21300000\t21350000\t-0.006812301752\n+chrX\t21350000\t21400000\t-0.004767405867\n+chrX\t21400000\t21450000\t0.000000000000\n+chrX\t21450000\t21500000\t-0.011016146286\n+chrX\t21500000\t21550000\t-0.002220183435\n+chrX\t21550000\t21600000\t0.000000000000\n+chrX\t21600000\t21650000\t0.010847097910\n+chrX\t21800000\t21850000\t0.000000000000\n+chrX\t21850000\t21900000\t-0.004203947422\n+chrX\t21900000\t21950000\t-0.003779034055\n+chrX\t21950000\t22000000\t-0.003865322501\n+chrX\t22000000\t22050000\t0.005700071718\n+chrX\t22050000\t22100000\t-0.002209909697\n+chrX\t22100000\t22150000\t-0.011412614059\n+chrX\t22150000\t22200000\t-0.002407124600\n+chrX\t22200000\t22250000\t-0.001909149896\n+chrX\t22250000\t22300000\t0.009260278990\n+chrX\t22300000\t22350000\t0.415034242513\n+chrX\t22350000\t22400000\t-0.001005473337\n+chrX\t22400000\t22422827\t-0.018885834822\n+chrXHet\t0\t50000\t0.866025403784\n+chrXHet\t50000\t100000\t-0.288675134595\n+chrXHet\t100000\t150000\t-0.288675134595\n+chrXHet\t150000\t200000\t-0.288675134595\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/GSM1436265_RAD21_ENCFF002EMQ.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicConvertFormat/GSM1436265_RAD21_ENCFF002EMQ.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,8688 @@\n+chr1\t9070077\t9070377\tchr1\t9161597\t9161998\t3.56853872159199\n+chr1\t33399109\t33399580\tchr1\t33472896\t33473132\t2.96495534866551\n+chr10\t120183442\t120183650\tchr10\t120219172\t120219445\t2.16689086564101\n+chr9\t33403433\t33403622\tchr9\t33466643\t33466934\t2.93417411277434\n+chr4\t82327572\t82327718\tchr4\t82765776\t82766279\t2.88416992254615\n+chr11\t47955862\t47956393\tchr11\t48131363\t48131755\t3.71969802258679\n+chr4\t143048082\t143048416\tchr4\t143274226\t143274598\t2.16311707296887\n+chr4\t143048082\t143048416\tchr4\t143761698\t143761933\t2.07342264106225\n+chr1\t91044809\t91045231\tchr1\t91744387\t91744562\t3.51909273701034\n+chr19\t6048781\t6049288\tchr19\t6125453\t6126018\t3.29338221810951\n+chr3\t114009726\t114010117\tchr3\t114137465\t114137878\t2.12000329080928\n+chr12\t7868964\t7869440\tchr12\t7959290\t7959857\t3.68024514839981\n+chr10\t56851410\t56851806\tchr10\t57023805\t57024048\t3.96640886878941\n+chr1\t160696549\t160697302\tchr1\t160738047\t160738414\t2.89116414906993\n+chr2\t159757650\t159758122\tchr2\t159975035\t159975474\t2.84014226125512\n+chr14\t20795485\t20795828\tchr14\t21077391\t21078231\t3.35059271246836\n+chr18\t55626554\t55626864\tchr18\t55789041\t55789434\t2.07615790164526\n+chr11\t8027897\t8028270\tchr11\t8120758\t8121217\t2.87072283976098\n+chr10\t101320283\t101320703\tchr10\t101371750\t101372300\t2.73733184380342\n+chr1\t65701483\t65702020\tchr1\t66153191\t66153690\t2.61573957577398\n+chr1\t65701483\t65702020\tchr1\t65925119\t65925446\t2.25869832061824\n+chr18\t44741865\t44742274\tchr18\t45282830\t45283060\t2.7685492265079\n+chr3\t135455696\t135456016\tchr3\t135613877\t135614273\t3.29133394789726\n+chr17\t73760711\t73761015\tchr17\t73844506\t73844791\t3.4820704597128\n+chr2\t105730818\t105731366\tchr2\t105854509\t105854661\t2.88287222042225\n+chr19\t17981148\t17981381\tchr19\t18043214\t18043759\t3.21815814201589\n+chr1\t968258\t968673\tchr1\t999245\t999513\t2.0898677183691\n+chr9\t71199335\t71199796\tchr9\t71300679\t71301065\t2.23458079847566\n+chr12\t3994711\t3995172\tchr12\t4386015\t4386462\t2.19499330026023\n+chr20\t36701900\t36702234\tchr20\t36793685\t36793968\t2.30055286128984\n+chrX\t147131403\t147131551\tchrX\t148086517\t148086769\t2.9129047806096\n+chr17\t5100354\t5100573\tchr17\t5140760\t5141199\t3.22477799940794\n+chr2\t165871624\t165871837\tchr2\t166060441\t166060815\t3.05782403079738\n+chr11\t62803219\t62803536\tchr11\t62980249\t62980432\t3.31066817882777\n+chr2\t105730818\t105731366\tchr2\t105852101\t105852503\t3.39284066154419\n+chr3\t196950934\t196951241\tchr3\t197236979\t197237377\t2.10831673803741\n+chr10\t92511204\t92511767\tchr10\t92630992\t92631276\t2.84382635556987\n+chr10\t92511204\t92511767\tchr10\t92622747\t92623111\t2.14121699866678\n+chr22\t22014517\t22014657\tchr22\t22307203\t22307475\t3.11735429074791\n+chr1\t155035599\t155035764\tchr1\t155057164\t155057722\t4.01383813965872\n+chr2\t74166651\t74166813\tchr2\t74214690\t74214882\t2.18499945967747\n+chr10\t101390269\t101390620\tchr10\t101470925\t101471221\t2.09196763275484\n+chr14\t93153253\t93153511\tchr14\t93249926\t93250605\t3.11082122588192\n+chr12\t124286170\t124286558\tchr12\t124326530\t124326755\t2.05957032269325\n+chr2\t11833000\t11833389\tchr2\t11919277\t11919692\t3.40777668251184\n+chr12\t21850781\t21851091\tchr12\t22596139\t22596803\t2.39933098199018\n+chr13\t85470363\t85470647\tchr13\t86402304\t86402529\t3.24881322547825\n+chr15\t68545243\t68545659\tchr15\t68675747\t68676109\t2.58748776974932\n+chr7\t106300372\t106301094\tchr7\t106376909\t106377352\t2.16592746274802\n+chr11\t65652144\t65652550\tchr11\t65756399\t65756930\t2.85484000816946\n+chr14\t72570826\t72571066\tchr14\t72759126\t72759488\t2.30918808091351\n+chr8\t64303880\t64304269\tchr8\t65294690\t65295020\t2.88681946013737\n+chr14\t65630731\t65631320\tchr14\t66291299\t66291784\t2.46223005124185\n+chr11\t90021495\t90021783\tchr11\t90168091\t90168231\t2.61407133628162\n+chr10\t17649444\t17649945\tchr10\t18393260\t18393633\t2.99679427749225\n+chr18\t5879451\t5879774\tchr18\t6219125\t6219404\t2.81824425454522\n+chr18\t5879451\t5879774\tchr18\t6482480\t6482966\t2.0952333712136\n+chr21\t30536571\t30537300\tchr21\t30744473\t30745011\t2.35393256739323\n+chr1\t32327060\t32327325\tchr1\t32429713\t32430270\t2.40655486151582\n+chr1\t228659628\t228659835\tchr1\t228703049\t228703255\t2.25870598019961\n+chr14\t24834779\t24835158\tchr14\t24900961\t2490125'..b'94\t157736229\tchr6\t158088133\t158088594\t3.10243121339195\n+chr5\t78428845\t78429343\tchr5\t78760365\t78760882\t3.0748988318322\n+chr1\t47902153\t47902427\tchr1\t48176083\t48176585\t2.48522594874561\n+chr2\t4006947\t4007241\tchr2\t6913151\t6913688\t4.24747297541131\n+chr12\t12798457\t12798785\tchr12\t12857512\t12857957\t2.30590982249516\n+chr15\t38766371\t38766732\tchr15\t38991833\t38992274\t2.27457695371833\n+chr3\t39748783\t39749163\tchr3\t40032056\t40032363\t2.36788372331025\n+chr3\t52325469\t52325828\tchr3\t52373415\t52373987\t2.77505578922318\n+chr1\t229393754\t229394381\tchr1\t229617774\t229618119\t3.49385678131\n+chr12\t10162531\t10162752\tchr12\t10292561\t10293019\t2.43174030806666\n+chr7\t18391997\t18392287\tchr7\t18650001\t18650242\t2.08062031061257\n+chr1\t101985827\t101986200\tchr1\t103436139\t103436315\t2.59457710004122\n+chr1\t181448199\t181448775\tchr1\t181645361\t181645851\t4.01057379390341\n+chr1\t181448199\t181448775\tchr1\t181906059\t181906414\t3.65517514743069\n+chr17\t30580033\t30580393\tchr17\t30646486\t30646917\t3.56831556005795\n+chr17\t30580033\t30580393\tchr17\t30646066\t30646209\t3.70134276477366\n+chr3\t120137809\t120138037\tchr3\t120277636\t120278018\t2.27750826455946\n+chr12\t114418331\t114418691\tchr12\t114946270\t114946668\t2.14159004423436\n+chr5\t89735499\t89735803\tchr5\t89825737\t89826329\t2.44447108269179\n+chr11\t67033632\t67033889\tchr11\t67056444\t67056617\t2.24785515824013\n+chr5\t32489800\t32490359\tchr5\t32613087\t32613692\t3.27921037485541\n+chr5\t34958326\t34958497\tchr5\t35003486\t35003856\t3.60298680582628\n+chr1\t182993093\t182993280\tchr1\t183040545\t183040701\t2.95339357383931\n+chr15\t84403369\t84403769\tchr15\t84703999\t84704519\t2.95913116827052\n+chr2\t85618403\t85618856\tchr2\t85647720\t85648198\t2.09056716583535\n+chr2\t206640855\t206641052\tchr2\t206678315\t206678579\t2.37559022379089\n+chrX\t18409089\t18409518\tchrX\t19352148\t19352594\t4.22802523282061\n+chrX\t18409089\t18409518\tchrX\t19353159\t19353437\t4.07323113400888\n+chr11\t72542616\t72542834\tchr11\t72888997\t72889570\t2.70387692541757\n+chr4\t91340277\t91340624\tchr4\t93308662\t93308909\t2.28363584748403\n+chr17\t55935737\t55936099\tchr17\t56072822\t56073114\t2.95734118880821\n+chr17\t55935737\t55936099\tchr17\t56076925\t56077120\t2.9214419425273\n+chr12\t64943314\t64943798\tchr12\t65090199\t65090423\t3.23555574413297\n+chr22\t42092980\t42093866\tchr22\t42159132\t42159429\t2.10400066069958\n+chr17\t55935737\t55936099\tchr17\t56190365\t56190770\t2.88126072360434\n+chr12\t127593244\t127593484\tchr12\t128162137\t128162347\t3.7481808942314\n+chr16\t33963114\t33963487\tchr2\t133012624\t133012990\t2.13583221262673\n+chr1\t121484228\t121485221\tchr10\t42529551\t42529721\t-1.84581207064953\n+chr1\t121485244\t121485510\tchr12\t34846267\t34846471\t-0.053284227252058\n+chr6\t58778098\t58778474\tchr10\t103539709\t103539949\t-0.949127868852785\n+chr6\t58778098\t58778474\tchr10\t103540905\t103541164\t-0.987874581868838\n+chr19\t27739073\t27739440\tchr10\t42529793\t42529937\t-0.946696465553499\n+chr2\t133012624\t133012990\tchr21\t9825501\t9826596\t1.5886518541928\n+chr1\t121484228\t121485221\tchr12\t34846267\t34846471\t-0.181494465044725\n+chr1\t91852718\t91853144\tchr12\t34372527\t34372768\t2.76052969833544\n+chr16\t33964837\t33964977\tchr21\t9826742\t9827563\t1.3483824850377\n+chr1\t121485244\t121485510\tchr10\t42529793\t42529937\t-1.33390778053503\n+chr20\t26189870\t26190303\tchr21\t9825501\t9826596\t1.68049013972561\n+chr20\t26188844\t26189203\tchr21\t9826742\t9827563\t1.46477612725631\n+chr20\t26189870\t26190303\tchr21\t9826742\t9827563\t1.58116976947492\n+chr16\t33964837\t33964977\tchr21\t9825501\t9826596\t1.44770285528839\n+chr20\t26188844\t26189203\tchr21\t9825501\t9826596\t1.564096497507\n+chr1\t91852718\t91853144\tchr12\t34371447\t34371686\t2.81678518546069\n+chr2\t133012624\t133012990\tchr21\t9826742\t9827563\t1.48933148394211\n+chr16\t33963114\t33963487\tchr21\t9826742\t9827563\t1.51813092113023\n+chr16\t33963114\t33963487\tchr21\t9825501\t9826596\t1.61745129138092\n+chr19\t27739073\t27739440\tchr10\t42529551\t42529721\t-0.856324383087355\n+chr1\t121485244\t121485510\tchr10\t42529551\t42529721\t-1.24353569806889\n+chr2\t91815114\t91815304\tchr4\t9764754\t9765075\t1.5316452618788\n+chr19\t27739073\t27739440\tchr1\t121485244\t121485510\t0.665658949132087\n+chr19\t27739073\t27739440\tchr1\t121484228\t121485221\t0.420403755247875\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/hg19.chrom.sizes --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicConvertFormat/hg19.chrom.sizes Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,93 @@ +chr1 249250621 +chr2 243199373 +chr3 198022430 +chr4 191154276 +chr5 180915260 +chr6 171115067 +chr7 159138663 +chrX 155270560 +chr8 146364022 +chr9 141213431 +chr10 135534747 +chr11 135006516 +chr12 133851895 +chr13 115169878 +chr14 107349540 +chr15 102531392 +chr16 90354753 +chr17 81195210 +chr18 78077248 +chr20 63025520 +chrY 59373566 +chr19 59128983 +chr22 51304566 +chr21 48129895 +chr6_ssto_hap7 4928567 +chr6_mcf_hap5 4833398 +chr6_cox_hap2 4795371 +chr6_mann_hap4 4683263 +chr6_apd_hap1 4622290 +chr6_qbl_hap6 4611984 +chr6_dbb_hap3 4610396 +chr17_ctg5_hap1 1680828 +chr4_ctg9_hap1 590426 +chr1_gl000192_random 547496 +chrUn_gl000225 211173 +chr4_gl000194_random 191469 +chr4_gl000193_random 189789 +chr9_gl000200_random 187035 +chrUn_gl000222 186861 +chrUn_gl000212 186858 +chr7_gl000195_random 182896 +chrUn_gl000223 180455 +chrUn_gl000224 179693 +chrUn_gl000219 179198 +chr17_gl000205_random 174588 +chrUn_gl000215 172545 +chrUn_gl000216 172294 +chrUn_gl000217 172149 +chr9_gl000199_random 169874 +chrUn_gl000211 166566 +chrUn_gl000213 164239 +chrUn_gl000220 161802 +chrUn_gl000218 161147 +chr19_gl000209_random 159169 +chrUn_gl000221 155397 +chrUn_gl000214 137718 +chrUn_gl000228 129120 +chrUn_gl000227 128374 +chr1_gl000191_random 106433 +chr19_gl000208_random 92689 +chr9_gl000198_random 90085 +chr17_gl000204_random 81310 +chrUn_gl000233 45941 +chrUn_gl000237 45867 +chrUn_gl000230 43691 +chrUn_gl000242 43523 +chrUn_gl000243 43341 +chrUn_gl000241 42152 +chrUn_gl000236 41934 +chrUn_gl000240 41933 +chr17_gl000206_random 41001 +chrUn_gl000232 40652 +chrUn_gl000234 40531 +chr11_gl000202_random 40103 +chrUn_gl000238 39939 +chrUn_gl000244 39929 +chrUn_gl000248 39786 +chr8_gl000196_random 38914 +chrUn_gl000249 38502 +chrUn_gl000246 38154 +chr17_gl000203_random 37498 +chr8_gl000197_random 37175 +chrUn_gl000245 36651 +chrUn_gl000247 36422 +chr9_gl000201_random 36148 +chrUn_gl000235 34474 +chrUn_gl000239 33824 +chr21_gl000210_random 27682 +chrUn_gl000231 27386 +chrUn_gl000229 19913 +chrM 16571 +chrUn_gl000226 15008 +chr18_gl000207_random 4262 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/small_test_matrix_chr4.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicConvertFormat/small_test_matrix_chr4.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,271 @@ +chr4 0 5000 1 +chr4 5000 10000 2 +chr4 10000 15000 3 +chr4 15000 20000 4 +chr4 20000 25000 5 +chr4 25000 30000 6 +chr4 30000 35000 7 +chr4 35000 40000 8 +chr4 40000 45000 9 +chr4 45000 50000 10 +chr4 50000 55000 11 +chr4 55000 60000 12 +chr4 60000 65000 13 +chr4 65000 70000 14 +chr4 70000 75000 15 +chr4 75000 80000 16 +chr4 80000 85000 17 +chr4 85000 90000 18 +chr4 90000 95000 19 +chr4 95000 100000 20 +chr4 100000 105000 21 +chr4 105000 110000 22 +chr4 110000 115000 23 +chr4 115000 120000 24 +chr4 120000 125000 25 +chr4 125000 130000 26 +chr4 130000 135000 27 +chr4 135000 140000 28 +chr4 140000 145000 29 +chr4 145000 150000 30 +chr4 150000 155000 31 +chr4 155000 160000 32 +chr4 160000 165000 33 +chr4 165000 170000 34 +chr4 170000 175000 35 +chr4 175000 180000 36 +chr4 180000 185000 37 +chr4 185000 190000 38 +chr4 190000 195000 39 +chr4 195000 200000 40 +chr4 200000 205000 41 +chr4 205000 210000 42 +chr4 210000 215000 43 +chr4 215000 220000 44 +chr4 220000 225000 45 +chr4 225000 230000 46 +chr4 230000 235000 47 +chr4 235000 240000 48 +chr4 240000 245000 49 +chr4 245000 250000 50 +chr4 250000 255000 51 +chr4 255000 260000 52 +chr4 260000 265000 53 +chr4 265000 270000 54 +chr4 270000 275000 55 +chr4 275000 280000 56 +chr4 280000 285000 57 +chr4 285000 290000 58 +chr4 290000 295000 59 +chr4 295000 300000 60 +chr4 300000 305000 61 +chr4 305000 310000 62 +chr4 310000 315000 63 +chr4 315000 320000 64 +chr4 320000 325000 65 +chr4 325000 330000 66 +chr4 330000 335000 67 +chr4 335000 340000 68 +chr4 340000 345000 69 +chr4 345000 350000 70 +chr4 350000 355000 71 +chr4 355000 360000 72 +chr4 360000 365000 73 +chr4 365000 370000 74 +chr4 370000 375000 75 +chr4 375000 380000 76 +chr4 380000 385000 77 +chr4 385000 390000 78 +chr4 390000 395000 79 +chr4 395000 400000 80 +chr4 400000 405000 81 +chr4 405000 410000 82 +chr4 410000 415000 83 +chr4 415000 420000 84 +chr4 420000 425000 85 +chr4 425000 430000 86 +chr4 430000 435000 87 +chr4 435000 440000 88 +chr4 440000 445000 89 +chr4 445000 450000 90 +chr4 450000 455000 91 +chr4 455000 460000 92 +chr4 460000 465000 93 +chr4 465000 470000 94 +chr4 470000 475000 95 +chr4 475000 480000 96 +chr4 480000 485000 97 +chr4 485000 490000 98 +chr4 490000 495000 99 +chr4 495000 500000 100 +chr4 500000 505000 101 +chr4 505000 510000 102 +chr4 510000 515000 103 +chr4 515000 520000 104 +chr4 520000 525000 105 +chr4 525000 530000 106 +chr4 530000 535000 107 +chr4 535000 540000 108 +chr4 540000 545000 109 +chr4 545000 550000 110 +chr4 550000 555000 111 +chr4 555000 560000 112 +chr4 560000 565000 113 +chr4 565000 570000 114 +chr4 570000 575000 115 +chr4 575000 580000 116 +chr4 580000 585000 117 +chr4 585000 590000 118 +chr4 590000 595000 119 +chr4 595000 600000 120 +chr4 600000 605000 121 +chr4 605000 610000 122 +chr4 610000 615000 123 +chr4 615000 620000 124 +chr4 620000 625000 125 +chr4 625000 630000 126 +chr4 630000 635000 127 +chr4 635000 640000 128 +chr4 640000 645000 129 +chr4 645000 650000 130 +chr4 650000 655000 131 +chr4 655000 660000 132 +chr4 660000 665000 133 +chr4 665000 670000 134 +chr4 670000 675000 135 +chr4 675000 680000 136 +chr4 680000 685000 137 +chr4 685000 690000 138 +chr4 690000 695000 139 +chr4 695000 700000 140 +chr4 700000 705000 141 +chr4 705000 710000 142 +chr4 710000 715000 143 +chr4 715000 720000 144 +chr4 720000 725000 145 +chr4 725000 730000 146 +chr4 730000 735000 147 +chr4 735000 740000 148 +chr4 740000 745000 149 +chr4 745000 750000 150 +chr4 750000 755000 151 +chr4 755000 760000 152 +chr4 760000 765000 153 +chr4 765000 770000 154 +chr4 770000 775000 155 +chr4 775000 780000 156 +chr4 780000 785000 157 +chr4 785000 790000 158 +chr4 790000 795000 159 +chr4 795000 800000 160 +chr4 800000 805000 161 +chr4 805000 810000 162 +chr4 810000 815000 163 +chr4 815000 820000 164 +chr4 820000 825000 165 +chr4 825000 830000 166 +chr4 830000 835000 167 +chr4 835000 840000 168 +chr4 840000 845000 169 +chr4 845000 850000 170 +chr4 850000 855000 171 +chr4 855000 860000 172 +chr4 860000 865000 173 +chr4 865000 870000 174 +chr4 870000 875000 175 +chr4 875000 880000 176 +chr4 880000 885000 177 +chr4 885000 890000 178 +chr4 890000 895000 179 +chr4 895000 900000 180 +chr4 900000 905000 181 +chr4 905000 910000 182 +chr4 910000 915000 183 +chr4 915000 920000 184 +chr4 920000 925000 185 +chr4 925000 930000 186 +chr4 930000 935000 187 +chr4 935000 940000 188 +chr4 940000 945000 189 +chr4 945000 950000 190 +chr4 950000 955000 191 +chr4 955000 960000 192 +chr4 960000 965000 193 +chr4 965000 970000 194 +chr4 970000 975000 195 +chr4 975000 980000 196 +chr4 980000 985000 197 +chr4 985000 990000 198 +chr4 990000 995000 199 +chr4 995000 1000000 200 +chr4 1000000 1005000 201 +chr4 1005000 1010000 202 +chr4 1010000 1015000 203 +chr4 1015000 1020000 204 +chr4 1020000 1025000 205 +chr4 1025000 1030000 206 +chr4 1030000 1035000 207 +chr4 1035000 1040000 208 +chr4 1040000 1045000 209 +chr4 1045000 1050000 210 +chr4 1050000 1055000 211 +chr4 1055000 1060000 212 +chr4 1060000 1065000 213 +chr4 1065000 1070000 214 +chr4 1070000 1075000 215 +chr4 1075000 1080000 216 +chr4 1080000 1085000 217 +chr4 1085000 1090000 218 +chr4 1090000 1095000 219 +chr4 1095000 1100000 220 +chr4 1100000 1105000 221 +chr4 1105000 1110000 222 +chr4 1110000 1115000 223 +chr4 1115000 1120000 224 +chr4 1120000 1125000 225 +chr4 1125000 1130000 226 +chr4 1130000 1135000 227 +chr4 1135000 1140000 228 +chr4 1140000 1145000 229 +chr4 1145000 1150000 230 +chr4 1150000 1155000 231 +chr4 1155000 1160000 232 +chr4 1160000 1165000 233 +chr4 1165000 1170000 234 +chr4 1170000 1175000 235 +chr4 1175000 1180000 236 +chr4 1180000 1185000 237 +chr4 1185000 1190000 238 +chr4 1190000 1195000 239 +chr4 1195000 1200000 240 +chr4 1200000 1205000 241 +chr4 1205000 1210000 242 +chr4 1210000 1215000 243 +chr4 1215000 1220000 244 +chr4 1220000 1225000 245 +chr4 1225000 1230000 246 +chr4 1230000 1235000 247 +chr4 1235000 1240000 248 +chr4 1240000 1245000 249 +chr4 1245000 1250000 250 +chr4 1250000 1255000 251 +chr4 1255000 1260000 252 +chr4 1260000 1265000 253 +chr4 1265000 1270000 254 +chr4 1270000 1275000 255 +chr4 1275000 1280000 256 +chr4 1280000 1285000 257 +chr4 1285000 1290000 258 +chr4 1290000 1295000 259 +chr4 1295000 1300000 260 +chr4 1300000 1305000 261 +chr4 1305000 1310000 262 +chr4 1310000 1315000 263 +chr4 1315000 1320000 264 +chr4 1320000 1325000 265 +chr4 1325000 1330000 266 +chr4 1330000 1335000 267 +chr4 1335000 1340000 268 +chr4 1340000 1345000 269 +chr4 1345000 1350000 270 +chr4 1350000 1351857 271 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/small_test_matrix_chr4.cool |
| b |
| Binary file test-data/hicConvertFormat/small_test_matrix_chr4.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/small_test_matrix_chr4.ginteractions.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicConvertFormat/small_test_matrix_chr4.ginteractions.tsv Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,326 @@\n+chr4\t70000\t75000\tchr4\t70000\t75000\t1\n+chr4\t70000\t75000\tchr4\t185000\t190000\t1\n+chr4\t75000\t80000\tchr4\t80000\t85000\t1\n+chr4\t80000\t85000\tchr4\t80000\t85000\t2\n+chr4\t80000\t85000\tchr4\t85000\t90000\t1\n+chr4\t80000\t85000\tchr4\t185000\t190000\t1\n+chr4\t85000\t90000\tchr4\t185000\t190000\t1\n+chr4\t85000\t90000\tchr4\t750000\t755000\t1\n+chr4\t90000\t95000\tchr4\t100000\t105000\t1\n+chr4\t90000\t95000\tchr4\t255000\t260000\t1\n+chr4\t90000\t95000\tchr4\t1030000\t1035000\t1\n+chr4\t95000\t100000\tchr4\t280000\t285000\t1\n+chr4\t100000\t105000\tchr4\t140000\t145000\t1\n+chr4\t105000\t110000\tchr4\t110000\t115000\t2\n+chr4\t105000\t110000\tchr4\t155000\t160000\t1\n+chr4\t105000\t110000\tchr4\t200000\t205000\t1\n+chr4\t105000\t110000\tchr4\t1110000\t1115000\t1\n+chr4\t110000\t115000\tchr4\t125000\t130000\t1\n+chr4\t110000\t115000\tchr4\t210000\t215000\t1\n+chr4\t120000\t125000\tchr4\t190000\t195000\t1\n+chr4\t120000\t125000\tchr4\t250000\t255000\t1\n+chr4\t125000\t130000\tchr4\t175000\t180000\t1\n+chr4\t125000\t130000\tchr4\t220000\t225000\t1\n+chr4\t125000\t130000\tchr4\t330000\t335000\t1\n+chr4\t130000\t135000\tchr4\t135000\t140000\t1\n+chr4\t130000\t135000\tchr4\t150000\t155000\t1\n+chr4\t135000\t140000\tchr4\t135000\t140000\t1\n+chr4\t135000\t140000\tchr4\t145000\t150000\t1\n+chr4\t135000\t140000\tchr4\t195000\t200000\t1\n+chr4\t140000\t145000\tchr4\t150000\t155000\t1\n+chr4\t140000\t145000\tchr4\t165000\t170000\t1\n+chr4\t145000\t150000\tchr4\t145000\t150000\t1\n+chr4\t145000\t150000\tchr4\t210000\t215000\t1\n+chr4\t150000\t155000\tchr4\t150000\t155000\t1\n+chr4\t150000\t155000\tchr4\t155000\t160000\t1\n+chr4\t150000\t155000\tchr4\t170000\t175000\t2\n+chr4\t150000\t155000\tchr4\t270000\t275000\t1\n+chr4\t150000\t155000\tchr4\t385000\t390000\t1\n+chr4\t150000\t155000\tchr4\t590000\t595000\t1\n+chr4\t150000\t155000\tchr4\t935000\t940000\t1\n+chr4\t155000\t160000\tchr4\t155000\t160000\t5\n+chr4\t155000\t160000\tchr4\t175000\t180000\t1\n+chr4\t155000\t160000\tchr4\t585000\t590000\t1\n+chr4\t160000\t165000\tchr4\t220000\t225000\t1\n+chr4\t160000\t165000\tchr4\t805000\t810000\t1\n+chr4\t170000\t175000\tchr4\t185000\t190000\t1\n+chr4\t170000\t175000\tchr4\t605000\t610000\t1\n+chr4\t175000\t180000\tchr4\t175000\t180000\t1\n+chr4\t175000\t180000\tchr4\t185000\t190000\t1\n+chr4\t175000\t180000\tchr4\t200000\t205000\t1\n+chr4\t175000\t180000\tchr4\t210000\t215000\t1\n+chr4\t175000\t180000\tchr4\t280000\t285000\t1\n+chr4\t175000\t180000\tchr4\t315000\t320000\t1\n+chr4\t180000\t185000\tchr4\t260000\t265000\t1\n+chr4\t180000\t185000\tchr4\t270000\t275000\t1\n+chr4\t180000\t185000\tchr4\t645000\t650000\t1\n+chr4\t185000\t190000\tchr4\t185000\t190000\t3\n+chr4\t185000\t190000\tchr4\t640000\t645000\t1\n+chr4\t190000\t195000\tchr4\t190000\t195000\t1\n+chr4\t195000\t200000\tchr4\t205000\t210000\t1\n+chr4\t195000\t200000\tchr4\t270000\t275000\t1\n+chr4\t195000\t200000\tchr4\t955000\t960000\t1\n+chr4\t195000\t200000\tchr4\t1085000\t1090000\t1\n+chr4\t200000\t205000\tchr4\t255000\t260000\t1\n+chr4\t200000\t205000\tchr4\t330000\t335000\t1\n+chr4\t200000\t205000\tchr4\t390000\t395000\t1\n+chr4\t205000\t210000\tchr4\t210000\t215000\t1\n+chr4\t205000\t210000\tchr4\t240000\t245000\t1\n+chr4\t205000\t210000\tchr4\t595000\t600000\t1\n+chr4\t210000\t215000\tchr4\t220000\t225000\t1\n+chr4\t220000\t225000\tchr4\t225000\t230000\t1\n+chr4\t220000\t225000\tchr4\t350000\t355000\t1\n+chr4\t235000\t240000\tchr4\t240000\t245000\t1\n+chr4\t235000\t240000\tchr4\t250000\t255000\t1\n+chr4\t235000\t240000\tchr4\t590000\t595000\t1\n+chr4\t245000\t250000\tchr4\t415000\t420000\t1\n+chr4\t260000\t265000\tchr4\t320000\t325000\t1\n+chr4\t265000\t270000\tchr4\t265000\t270000\t1\n+chr4\t265000\t270000\tchr4\t330000\t335000\t1\n+chr4\t270000\t275000\tchr4\t270000\t275000\t1\n+chr4\t275000\t280000\tchr4\t275000\t280000\t2\n+chr4\t275000\t280000\tchr4\t280000\t285000\t1\n+chr4\t290000\t295000\tchr4\t515000\t520000\t1\n+chr4\t300000\t305000\tchr4\t315000\t320000\t1\n+chr4\t305000\t310000\tchr4\t325000\t330000\t1\n+chr4\t305000\t310000\tchr4\t440000\t445000\t1\n+chr4\t310000\t315000\tchr4\t395000\t400000\t1\n+chr4\t320000\t325000\tchr4\t335000\t340000\t1\n+chr4\t320000\t325000\tchr4\t380000\t385000\t1\n+chr4\t320000\t325000\tchr4\t585000\t590000\t1\n+chr4\t330000\t335000\tchr4\t345000\t350000\t1\n+chr4\t335000\t340000\tchr4\t335000\t340000\t1\n+chr4\t335000\t340000\tchr4\t345000\t350000\t1\n+chr4\t345000\t350000\tchr4\t705000\t710000\t1\n+chr4\t350000\t355000\tchr4\t355000\t360000\t1\n+chr4\t350000\t355000\tchr4\t365000\t370000\t1\n+chr4\t350000\t355000\tchr4\t370000\t375000\t1\n+chr4\t370000\t375000\tchr4\t3950'..b'000\t1\n+chr4\t955000\t960000\tchr4\t960000\t965000\t1\n+chr4\t955000\t960000\tchr4\t1205000\t1210000\t1\n+chr4\t960000\t965000\tchr4\t960000\t965000\t1\n+chr4\t960000\t965000\tchr4\t975000\t980000\t1\n+chr4\t965000\t970000\tchr4\t1025000\t1030000\t1\n+chr4\t965000\t970000\tchr4\t1095000\t1100000\t1\n+chr4\t970000\t975000\tchr4\t975000\t980000\t2\n+chr4\t970000\t975000\tchr4\t1100000\t1105000\t1\n+chr4\t975000\t980000\tchr4\t975000\t980000\t1\n+chr4\t975000\t980000\tchr4\t1070000\t1075000\t1\n+chr4\t975000\t980000\tchr4\t1110000\t1115000\t1\n+chr4\t980000\t985000\tchr4\t990000\t995000\t1\n+chr4\t985000\t990000\tchr4\t990000\t995000\t1\n+chr4\t985000\t990000\tchr4\t1000000\t1005000\t1\n+chr4\t985000\t990000\tchr4\t1030000\t1035000\t1\n+chr4\t985000\t990000\tchr4\t1045000\t1050000\t1\n+chr4\t990000\t995000\tchr4\t990000\t995000\t1\n+chr4\t990000\t995000\tchr4\t995000\t1000000\t1\n+chr4\t990000\t995000\tchr4\t1025000\t1030000\t1\n+chr4\t990000\t995000\tchr4\t1055000\t1060000\t1\n+chr4\t1000000\t1005000\tchr4\t1000000\t1005000\t1\n+chr4\t1000000\t1005000\tchr4\t1105000\t1110000\t1\n+chr4\t1005000\t1010000\tchr4\t1010000\t1015000\t1\n+chr4\t1005000\t1010000\tchr4\t1020000\t1025000\t1\n+chr4\t1010000\t1015000\tchr4\t1020000\t1025000\t1\n+chr4\t1010000\t1015000\tchr4\t1040000\t1045000\t1\n+chr4\t1015000\t1020000\tchr4\t1020000\t1025000\t1\n+chr4\t1015000\t1020000\tchr4\t1025000\t1030000\t1\n+chr4\t1020000\t1025000\tchr4\t1020000\t1025000\t2\n+chr4\t1020000\t1025000\tchr4\t1025000\t1030000\t2\n+chr4\t1020000\t1025000\tchr4\t1035000\t1040000\t1\n+chr4\t1020000\t1025000\tchr4\t1080000\t1085000\t1\n+chr4\t1020000\t1025000\tchr4\t1205000\t1210000\t1\n+chr4\t1030000\t1035000\tchr4\t1035000\t1040000\t4\n+chr4\t1030000\t1035000\tchr4\t1040000\t1045000\t1\n+chr4\t1030000\t1035000\tchr4\t1060000\t1065000\t1\n+chr4\t1030000\t1035000\tchr4\t1075000\t1080000\t1\n+chr4\t1035000\t1040000\tchr4\t1115000\t1120000\t1\n+chr4\t1035000\t1040000\tchr4\t1135000\t1140000\t1\n+chr4\t1035000\t1040000\tchr4\t1170000\t1175000\t1\n+chr4\t1035000\t1040000\tchr4\t1200000\t1205000\t1\n+chr4\t1050000\t1055000\tchr4\t1155000\t1160000\t1\n+chr4\t1055000\t1060000\tchr4\t1100000\t1105000\t1\n+chr4\t1055000\t1060000\tchr4\t1105000\t1110000\t1\n+chr4\t1055000\t1060000\tchr4\t1155000\t1160000\t1\n+chr4\t1060000\t1065000\tchr4\t1060000\t1065000\t2\n+chr4\t1060000\t1065000\tchr4\t1065000\t1070000\t1\n+chr4\t1060000\t1065000\tchr4\t1195000\t1200000\t1\n+chr4\t1060000\t1065000\tchr4\t1210000\t1215000\t1\n+chr4\t1070000\t1075000\tchr4\t1085000\t1090000\t1\n+chr4\t1080000\t1085000\tchr4\t1080000\t1085000\t1\n+chr4\t1080000\t1085000\tchr4\t1095000\t1100000\t1\n+chr4\t1085000\t1090000\tchr4\t1085000\t1090000\t1\n+chr4\t1085000\t1090000\tchr4\t1200000\t1205000\t1\n+chr4\t1090000\t1095000\tchr4\t1180000\t1185000\t1\n+chr4\t1090000\t1095000\tchr4\t1185000\t1190000\t1\n+chr4\t1095000\t1100000\tchr4\t1190000\t1195000\t1\n+chr4\t1100000\t1105000\tchr4\t1100000\t1105000\t1\n+chr4\t1100000\t1105000\tchr4\t1105000\t1110000\t1\n+chr4\t1105000\t1110000\tchr4\t1120000\t1125000\t1\n+chr4\t1105000\t1110000\tchr4\t1130000\t1135000\t1\n+chr4\t1110000\t1115000\tchr4\t1140000\t1145000\t1\n+chr4\t1115000\t1120000\tchr4\t1115000\t1120000\t1\n+chr4\t1125000\t1130000\tchr4\t1130000\t1135000\t1\n+chr4\t1130000\t1135000\tchr4\t1135000\t1140000\t1\n+chr4\t1130000\t1135000\tchr4\t1175000\t1180000\t1\n+chr4\t1135000\t1140000\tchr4\t1135000\t1140000\t1\n+chr4\t1135000\t1140000\tchr4\t1150000\t1155000\t2\n+chr4\t1135000\t1140000\tchr4\t1155000\t1160000\t1\n+chr4\t1135000\t1140000\tchr4\t1180000\t1185000\t1\n+chr4\t1135000\t1140000\tchr4\t1205000\t1210000\t1\n+chr4\t1140000\t1145000\tchr4\t1145000\t1150000\t1\n+chr4\t1140000\t1145000\tchr4\t1165000\t1170000\t1\n+chr4\t1140000\t1145000\tchr4\t1180000\t1185000\t1\n+chr4\t1140000\t1145000\tchr4\t1185000\t1190000\t1\n+chr4\t1145000\t1150000\tchr4\t1160000\t1165000\t2\n+chr4\t1155000\t1160000\tchr4\t1155000\t1160000\t1\n+chr4\t1165000\t1170000\tchr4\t1165000\t1170000\t3\n+chr4\t1170000\t1175000\tchr4\t1185000\t1190000\t1\n+chr4\t1170000\t1175000\tchr4\t1210000\t1215000\t1\n+chr4\t1175000\t1180000\tchr4\t1175000\t1180000\t1\n+chr4\t1175000\t1180000\tchr4\t1190000\t1195000\t1\n+chr4\t1180000\t1185000\tchr4\t1180000\t1185000\t1\n+chr4\t1185000\t1190000\tchr4\t1200000\t1205000\t1\n+chr4\t1185000\t1190000\tchr4\t1250000\t1255000\t1\n+chr4\t1190000\t1195000\tchr4\t1210000\t1215000\t1\n+chr4\t1195000\t1200000\tchr4\t1195000\t1200000\t1\n+chr4\t1200000\t1205000\tchr4\t1205000\t1210000\t1\n+chr4\t1245000\t1250000\tchr4\t1245000\t1250000\t1\n+chr4\t1245000\t1250000\tchr4\t1250000\t1255000\t1\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/small_test_matrix_chr4.hicpro --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicConvertFormat/small_test_matrix_chr4.hicpro Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,326 @@ +15 15 1 +15 38 1 +16 17 1 +17 17 2 +17 18 1 +17 38 1 +18 38 1 +18 151 1 +19 21 1 +19 52 1 +19 207 1 +20 57 1 +21 29 1 +22 23 2 +22 32 1 +22 41 1 +22 223 1 +23 26 1 +23 43 1 +25 39 1 +25 51 1 +26 36 1 +26 45 1 +26 67 1 +27 28 1 +27 31 1 +28 28 1 +28 30 1 +28 40 1 +29 31 1 +29 34 1 +30 30 1 +30 43 1 +31 31 1 +31 32 1 +31 35 2 +31 55 1 +31 78 1 +31 119 1 +31 188 1 +32 32 5 +32 36 1 +32 118 1 +33 45 1 +33 162 1 +35 38 1 +35 122 1 +36 36 1 +36 38 1 +36 41 1 +36 43 1 +36 57 1 +36 64 1 +37 53 1 +37 55 1 +37 130 1 +38 38 3 +38 129 1 +39 39 1 +40 42 1 +40 55 1 +40 192 1 +40 218 1 +41 52 1 +41 67 1 +41 79 1 +42 43 1 +42 49 1 +42 120 1 +43 45 1 +45 46 1 +45 71 1 +48 49 1 +48 51 1 +48 119 1 +50 84 1 +53 65 1 +54 54 1 +54 67 1 +55 55 1 +56 56 2 +56 57 1 +59 104 1 +61 64 1 +62 66 1 +62 89 1 +63 80 1 +65 68 1 +65 77 1 +65 118 1 +67 70 1 +68 68 1 +68 70 1 +70 142 1 +71 72 1 +71 74 1 +71 75 1 +75 80 1 +75 190 1 +77 168 1 +78 92 1 +80 83 1 +81 95 1 +82 103 1 +82 120 1 +87 126 1 +88 216 1 +89 89 1 +89 90 1 +90 113 1 +92 92 1 +93 96 1 +94 98 1 +95 97 1 +97 151 1 +104 104 1 +105 105 1 +106 198 1 +108 113 1 +109 109 1 +109 110 1 +109 119 1 +109 125 1 +109 159 1 +110 165 1 +110 189 1 +111 112 1 +111 128 1 +112 112 1 +112 194 1 +113 198 1 +114 114 1 +114 122 1 +114 123 1 +114 165 1 +114 196 1 +115 116 1 +116 121 1 +116 129 1 +116 155 1 +117 119 1 +117 128 1 +118 121 1 +118 189 1 +119 125 1 +119 132 1 +120 142 1 +120 149 1 +121 132 1 +121 236 1 +122 131 1 +122 138 1 +122 146 1 +124 125 1 +124 134 1 +125 125 1 +125 141 1 +127 174 1 +127 212 1 +128 130 1 +128 135 1 +129 129 1 +130 178 1 +130 191 1 +130 204 1 +130 213 1 +132 184 1 +132 208 1 +134 136 1 +134 190 1 +134 242 1 +135 177 1 +135 186 1 +136 180 1 +137 142 1 +137 147 1 +137 189 1 +138 143 1 +138 160 1 +141 142 1 +142 142 1 +142 143 1 +142 178 1 +143 143 1 +144 193 1 +145 145 1 +146 146 1 +146 155 1 +147 147 1 +148 149 1 +148 154 1 +149 149 1 +149 150 1 +149 153 1 +149 155 1 +149 169 1 +149 170 1 +149 176 1 +150 162 1 +151 153 1 +153 154 1 +153 186 1 +154 154 1 +154 199 1 +154 215 1 +155 155 1 +155 156 1 +155 159 1 +156 156 1 +160 161 1 +164 176 1 +165 171 1 +166 168 1 +168 168 1 +168 201 1 +169 178 1 +170 176 1 +170 195 1 +171 196 1 +174 178 2 +174 194 1 +175 232 1 +175 243 1 +176 176 1 +177 177 1 +177 209 1 +178 178 1 +179 231 1 +180 212 1 +182 198 1 +183 185 1 +183 186 1 +183 187 1 +188 188 2 +189 201 1 +190 201 1 +192 193 1 +192 242 1 +193 193 1 +193 196 1 +194 206 1 +194 220 1 +195 196 2 +195 221 1 +196 196 1 +196 215 1 +196 223 1 +197 199 1 +198 199 1 +198 201 1 +198 207 1 +198 210 1 +199 199 1 +199 200 1 +199 206 1 +199 212 1 +201 201 1 +201 222 1 +202 203 1 +202 205 1 +203 205 1 +203 209 1 +204 205 1 +204 206 1 +205 205 2 +205 206 2 +205 208 1 +205 217 1 +205 242 1 +207 208 4 +207 209 1 +207 213 1 +207 216 1 +208 224 1 +208 228 1 +208 235 1 +208 241 1 +211 232 1 +212 221 1 +212 222 1 +212 232 1 +213 213 2 +213 214 1 +213 240 1 +213 243 1 +215 218 1 +217 217 1 +217 220 1 +218 218 1 +218 241 1 +219 237 1 +219 238 1 +220 239 1 +221 221 1 +221 222 1 +222 225 1 +222 227 1 +223 229 1 +224 224 1 +226 227 1 +227 228 1 +227 236 1 +228 228 1 +228 231 2 +228 232 1 +228 237 1 +228 242 1 +229 230 1 +229 234 1 +229 237 1 +229 238 1 +230 233 2 +232 232 1 +234 234 3 +235 238 1 +235 243 1 +236 236 1 +236 239 1 +237 237 1 +238 241 1 +238 251 1 +239 243 1 +240 240 1 +241 242 1 +250 250 1 +250 251 1 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/small_test_matrix_chr4.homer |
| b |
| Binary file test-data/hicConvertFormat/small_test_matrix_chr4.homer has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicConvertFormat/test_matrix.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicConvertFormat/test_matrix.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,3114 @@\n+chr1\t0\t1000000\t1\n+chr1\t1000000\t2000000\t2\n+chr1\t2000000\t3000000\t3\n+chr1\t3000000\t4000000\t4\n+chr1\t4000000\t5000000\t5\n+chr1\t5000000\t6000000\t6\n+chr1\t6000000\t7000000\t7\n+chr1\t7000000\t8000000\t8\n+chr1\t8000000\t9000000\t9\n+chr1\t9000000\t10000000\t10\n+chr1\t10000000\t11000000\t11\n+chr1\t11000000\t12000000\t12\n+chr1\t12000000\t13000000\t13\n+chr1\t13000000\t14000000\t14\n+chr1\t14000000\t15000000\t15\n+chr1\t15000000\t16000000\t16\n+chr1\t16000000\t17000000\t17\n+chr1\t17000000\t18000000\t18\n+chr1\t18000000\t19000000\t19\n+chr1\t19000000\t20000000\t20\n+chr1\t20000000\t21000000\t21\n+chr1\t21000000\t22000000\t22\n+chr1\t22000000\t23000000\t23\n+chr1\t23000000\t24000000\t24\n+chr1\t24000000\t25000000\t25\n+chr1\t25000000\t26000000\t26\n+chr1\t26000000\t27000000\t27\n+chr1\t27000000\t28000000\t28\n+chr1\t28000000\t29000000\t29\n+chr1\t29000000\t30000000\t30\n+chr1\t30000000\t31000000\t31\n+chr1\t31000000\t32000000\t32\n+chr1\t32000000\t33000000\t33\n+chr1\t33000000\t34000000\t34\n+chr1\t34000000\t35000000\t35\n+chr1\t35000000\t36000000\t36\n+chr1\t36000000\t37000000\t37\n+chr1\t37000000\t38000000\t38\n+chr1\t38000000\t39000000\t39\n+chr1\t39000000\t40000000\t40\n+chr1\t40000000\t41000000\t41\n+chr1\t41000000\t42000000\t42\n+chr1\t42000000\t43000000\t43\n+chr1\t43000000\t44000000\t44\n+chr1\t44000000\t45000000\t45\n+chr1\t45000000\t46000000\t46\n+chr1\t46000000\t47000000\t47\n+chr1\t47000000\t48000000\t48\n+chr1\t48000000\t49000000\t49\n+chr1\t49000000\t50000000\t50\n+chr1\t50000000\t51000000\t51\n+chr1\t51000000\t52000000\t52\n+chr1\t52000000\t53000000\t53\n+chr1\t53000000\t54000000\t54\n+chr1\t54000000\t55000000\t55\n+chr1\t55000000\t56000000\t56\n+chr1\t56000000\t57000000\t57\n+chr1\t57000000\t58000000\t58\n+chr1\t58000000\t59000000\t59\n+chr1\t59000000\t60000000\t60\n+chr1\t60000000\t61000000\t61\n+chr1\t61000000\t62000000\t62\n+chr1\t62000000\t63000000\t63\n+chr1\t63000000\t64000000\t64\n+chr1\t64000000\t65000000\t65\n+chr1\t65000000\t66000000\t66\n+chr1\t66000000\t67000000\t67\n+chr1\t67000000\t68000000\t68\n+chr1\t68000000\t69000000\t69\n+chr1\t69000000\t70000000\t70\n+chr1\t70000000\t71000000\t71\n+chr1\t71000000\t72000000\t72\n+chr1\t72000000\t73000000\t73\n+chr1\t73000000\t74000000\t74\n+chr1\t74000000\t75000000\t75\n+chr1\t75000000\t76000000\t76\n+chr1\t76000000\t77000000\t77\n+chr1\t77000000\t78000000\t78\n+chr1\t78000000\t79000000\t79\n+chr1\t79000000\t80000000\t80\n+chr1\t80000000\t81000000\t81\n+chr1\t81000000\t82000000\t82\n+chr1\t82000000\t83000000\t83\n+chr1\t83000000\t84000000\t84\n+chr1\t84000000\t85000000\t85\n+chr1\t85000000\t86000000\t86\n+chr1\t86000000\t87000000\t87\n+chr1\t87000000\t88000000\t88\n+chr1\t88000000\t89000000\t89\n+chr1\t89000000\t90000000\t90\n+chr1\t90000000\t91000000\t91\n+chr1\t91000000\t92000000\t92\n+chr1\t92000000\t93000000\t93\n+chr1\t93000000\t94000000\t94\n+chr1\t94000000\t95000000\t95\n+chr1\t95000000\t96000000\t96\n+chr1\t96000000\t97000000\t97\n+chr1\t97000000\t98000000\t98\n+chr1\t98000000\t99000000\t99\n+chr1\t99000000\t100000000\t100\n+chr1\t100000000\t101000000\t101\n+chr1\t101000000\t102000000\t102\n+chr1\t102000000\t103000000\t103\n+chr1\t103000000\t104000000\t104\n+chr1\t104000000\t105000000\t105\n+chr1\t105000000\t106000000\t106\n+chr1\t106000000\t107000000\t107\n+chr1\t107000000\t108000000\t108\n+chr1\t108000000\t109000000\t109\n+chr1\t109000000\t110000000\t110\n+chr1\t110000000\t111000000\t111\n+chr1\t111000000\t112000000\t112\n+chr1\t112000000\t113000000\t113\n+chr1\t113000000\t114000000\t114\n+chr1\t114000000\t115000000\t115\n+chr1\t115000000\t116000000\t116\n+chr1\t116000000\t117000000\t117\n+chr1\t117000000\t118000000\t118\n+chr1\t118000000\t119000000\t119\n+chr1\t119000000\t120000000\t120\n+chr1\t120000000\t121000000\t121\n+chr1\t121000000\t122000000\t122\n+chr1\t122000000\t123000000\t123\n+chr1\t123000000\t124000000\t124\n+chr1\t124000000\t125000000\t125\n+chr1\t125000000\t126000000\t126\n+chr1\t126000000\t127000000\t127\n+chr1\t127000000\t128000000\t128\n+chr1\t128000000\t129000000\t129\n+chr1\t129000000\t130000000\t130\n+chr1\t130000000\t131000000\t131\n+chr1\t131000000\t132000000\t132\n+chr1\t132000000\t133000000\t133\n+chr1\t133000000\t134000000\t134\n+chr1\t134000000\t135000000\t135\n+chr1\t135000000\t136000000\t136\n+chr1\t136000000\t137000000\t137\n+chr1\t137000000\t138000000\t138\n+chr1\t138000000\t139000000\t139\n+chr1\t139000000\t140000000\t140\n+chr1\t140000000\t141000000\t141\n+chr1\t141000000\t142000000\t142\n+chr1\t142000000\t143000000\t143\n+chr1\t143000000\t144000'..b'\t2979\n+chrX\t82000000\t83000000\t2980\n+chrX\t83000000\t84000000\t2981\n+chrX\t84000000\t85000000\t2982\n+chrX\t85000000\t86000000\t2983\n+chrX\t86000000\t87000000\t2984\n+chrX\t87000000\t88000000\t2985\n+chrX\t88000000\t89000000\t2986\n+chrX\t89000000\t90000000\t2987\n+chrX\t90000000\t91000000\t2988\n+chrX\t91000000\t92000000\t2989\n+chrX\t92000000\t93000000\t2990\n+chrX\t93000000\t94000000\t2991\n+chrX\t94000000\t95000000\t2992\n+chrX\t95000000\t96000000\t2993\n+chrX\t96000000\t97000000\t2994\n+chrX\t97000000\t98000000\t2995\n+chrX\t98000000\t99000000\t2996\n+chrX\t99000000\t100000000\t2997\n+chrX\t100000000\t101000000\t2998\n+chrX\t101000000\t102000000\t2999\n+chrX\t102000000\t103000000\t3000\n+chrX\t103000000\t104000000\t3001\n+chrX\t104000000\t105000000\t3002\n+chrX\t105000000\t106000000\t3003\n+chrX\t106000000\t107000000\t3004\n+chrX\t107000000\t108000000\t3005\n+chrX\t108000000\t109000000\t3006\n+chrX\t109000000\t110000000\t3007\n+chrX\t110000000\t111000000\t3008\n+chrX\t111000000\t112000000\t3009\n+chrX\t112000000\t113000000\t3010\n+chrX\t113000000\t114000000\t3011\n+chrX\t114000000\t115000000\t3012\n+chrX\t115000000\t116000000\t3013\n+chrX\t116000000\t117000000\t3014\n+chrX\t117000000\t118000000\t3015\n+chrX\t118000000\t119000000\t3016\n+chrX\t119000000\t120000000\t3017\n+chrX\t120000000\t121000000\t3018\n+chrX\t121000000\t122000000\t3019\n+chrX\t122000000\t123000000\t3020\n+chrX\t123000000\t124000000\t3021\n+chrX\t124000000\t125000000\t3022\n+chrX\t125000000\t126000000\t3023\n+chrX\t126000000\t127000000\t3024\n+chrX\t127000000\t128000000\t3025\n+chrX\t128000000\t129000000\t3026\n+chrX\t129000000\t130000000\t3027\n+chrX\t130000000\t131000000\t3028\n+chrX\t131000000\t132000000\t3029\n+chrX\t132000000\t133000000\t3030\n+chrX\t133000000\t134000000\t3031\n+chrX\t134000000\t135000000\t3032\n+chrX\t135000000\t136000000\t3033\n+chrX\t136000000\t137000000\t3034\n+chrX\t137000000\t138000000\t3035\n+chrX\t138000000\t139000000\t3036\n+chrX\t139000000\t140000000\t3037\n+chrX\t140000000\t141000000\t3038\n+chrX\t141000000\t142000000\t3039\n+chrX\t142000000\t143000000\t3040\n+chrX\t143000000\t144000000\t3041\n+chrX\t144000000\t145000000\t3042\n+chrX\t145000000\t146000000\t3043\n+chrX\t146000000\t147000000\t3044\n+chrX\t147000000\t148000000\t3045\n+chrX\t148000000\t149000000\t3046\n+chrX\t149000000\t150000000\t3047\n+chrX\t150000000\t151000000\t3048\n+chrX\t151000000\t152000000\t3049\n+chrX\t152000000\t153000000\t3050\n+chrX\t153000000\t154000000\t3051\n+chrX\t154000000\t155000000\t3052\n+chrX\t155000000\t155270560\t3053\n+chrY\t0\t1000000\t3054\n+chrY\t1000000\t2000000\t3055\n+chrY\t2000000\t3000000\t3056\n+chrY\t3000000\t4000000\t3057\n+chrY\t4000000\t5000000\t3058\n+chrY\t5000000\t6000000\t3059\n+chrY\t6000000\t7000000\t3060\n+chrY\t7000000\t8000000\t3061\n+chrY\t8000000\t9000000\t3062\n+chrY\t9000000\t10000000\t3063\n+chrY\t10000000\t11000000\t3064\n+chrY\t11000000\t12000000\t3065\n+chrY\t12000000\t13000000\t3066\n+chrY\t13000000\t14000000\t3067\n+chrY\t14000000\t15000000\t3068\n+chrY\t15000000\t16000000\t3069\n+chrY\t16000000\t17000000\t3070\n+chrY\t17000000\t18000000\t3071\n+chrY\t18000000\t19000000\t3072\n+chrY\t19000000\t20000000\t3073\n+chrY\t20000000\t21000000\t3074\n+chrY\t21000000\t22000000\t3075\n+chrY\t22000000\t23000000\t3076\n+chrY\t23000000\t24000000\t3077\n+chrY\t24000000\t25000000\t3078\n+chrY\t25000000\t26000000\t3079\n+chrY\t26000000\t27000000\t3080\n+chrY\t27000000\t28000000\t3081\n+chrY\t28000000\t29000000\t3082\n+chrY\t29000000\t30000000\t3083\n+chrY\t30000000\t31000000\t3084\n+chrY\t31000000\t32000000\t3085\n+chrY\t32000000\t33000000\t3086\n+chrY\t33000000\t34000000\t3087\n+chrY\t34000000\t35000000\t3088\n+chrY\t35000000\t36000000\t3089\n+chrY\t36000000\t37000000\t3090\n+chrY\t37000000\t38000000\t3091\n+chrY\t38000000\t39000000\t3092\n+chrY\t39000000\t40000000\t3093\n+chrY\t40000000\t41000000\t3094\n+chrY\t41000000\t42000000\t3095\n+chrY\t42000000\t43000000\t3096\n+chrY\t43000000\t44000000\t3097\n+chrY\t44000000\t45000000\t3098\n+chrY\t45000000\t46000000\t3099\n+chrY\t46000000\t47000000\t3100\n+chrY\t47000000\t48000000\t3101\n+chrY\t48000000\t49000000\t3102\n+chrY\t49000000\t50000000\t3103\n+chrY\t50000000\t51000000\t3104\n+chrY\t51000000\t52000000\t3105\n+chrY\t52000000\t53000000\t3106\n+chrY\t53000000\t54000000\t3107\n+chrY\t54000000\t55000000\t3108\n+chrY\t55000000\t56000000\t3109\n+chrY\t56000000\t57000000\t3110\n+chrY\t57000000\t58000000\t3111\n+chrY\t58000000\t59000000\t3112\n+chrY\t59000000\t59373566\t3113\n+chrM\t0\t16571\t3114\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCorrectMatrix/diagnostic_plot.png |
| b |
| Binary file test-data/hicCorrectMatrix/diagnostic_plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCorrectMatrix/hicCorrectMatrix_result1.npz.h5 |
| b |
| Binary file test-data/hicCorrectMatrix/hicCorrectMatrix_result1.npz.h5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCorrelate_heatmap_result1.png |
| b |
| Binary file test-data/hicCorrelate_heatmap_result1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicCorrelate_scatter_result1.png |
| b |
| Binary file test-data/hicCorrelate_scatter_result1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicDifferentialTAD/accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicDifferentialTAD/accepted.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,4 @@ +# Created with HiCExplorer's hicDifferentialTAD version 3.7.2 +# H0 'regions are equal' H0 is accepted for all p-value greater the user given p-value threshold; i.e. regions in this file are not considered as differential. +# Accepted regions with Wilcoxon rank-sum test to p-value: 1.0 with used mode: all and modeReject: one +# Chromosome start end name score strand p-value left-inter-TAD p-value right-inter-TAD p-value intra-TAD W left-inter-TAD W right-inter-TAD W intra-TAD |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicDifferentialTAD/multiNone_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicDifferentialTAD/multiNone_domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1402 @@\n+chr3L\t165000\t260000\tID_0.01_1\t-0.103166750000\t.\t165000\t260000\t31,120,180\n+chr3L\t260000\t335000\tID_0.01_2\t-0.026655000000\t.\t260000\t335000\t51,160,44\n+chr3L\t335000\t360000\tID_0.01_3\t-0.030848000000\t.\t335000\t360000\t31,120,180\n+chr3L\t360000\t485000\tID_0.01_4\t-0.058081500000\t.\t360000\t485000\t51,160,44\n+chr3L\t485000\t525000\tID_0.01_5\t-0.071697750000\t.\t485000\t525000\t31,120,180\n+chr3L\t525000\t680000\tID_0.01_6\t-0.106040500000\t.\t525000\t680000\t51,160,44\n+chr3L\t680000\t705000\tID_0.01_7\t-0.014885500000\t.\t680000\t705000\t31,120,180\n+chr3L\t705000\t740000\tID_0.01_8\t0.002784000000\t.\t705000\t740000\t51,160,44\n+chr3L\t740000\t870000\tID_0.01_9\t0.009499750000\t.\t740000\t870000\t31,120,180\n+chr3L\t870000\t1010000\tID_0.01_10\t-0.095469750000\t.\t870000\t1010000\t51,160,44\n+chr3L\t1010000\t1040000\tID_0.01_11\t-0.051821750000\t.\t1010000\t1040000\t31,120,180\n+chr3L\t1040000\t1110000\tID_0.01_12\t-0.058748750000\t.\t1040000\t1110000\t51,160,44\n+chr3L\t1110000\t1210000\tID_0.01_13\t-0.048349000000\t.\t1110000\t1210000\t31,120,180\n+chr3L\t1210000\t1245000\tID_0.01_14\t-0.056756500000\t.\t1210000\t1245000\t51,160,44\n+chr3L\t1245000\t1300000\tID_0.01_15\t-0.064143500000\t.\t1245000\t1300000\t31,120,180\n+chr3L\t1300000\t1465000\tID_0.01_16\t-0.091379000000\t.\t1300000\t1465000\t51,160,44\n+chr3L\t1465000\t1535000\tID_0.01_17\t-0.013072250000\t.\t1465000\t1535000\t31,120,180\n+chr3L\t1535000\t1580000\tID_0.01_18\t-0.087115250000\t.\t1535000\t1580000\t51,160,44\n+chr3L\t1580000\t1640000\tID_0.01_19\t-0.082358750000\t.\t1580000\t1640000\t31,120,180\n+chr3L\t1640000\t1670000\tID_0.01_20\t-0.062875500000\t.\t1640000\t1670000\t51,160,44\n+chr3L\t1670000\t1735000\tID_0.01_21\t-0.037945000000\t.\t1670000\t1735000\t31,120,180\n+chr3L\t1735000\t1815000\tID_0.01_22\t-0.050313000000\t.\t1735000\t1815000\t51,160,44\n+chr3L\t1815000\t1850000\tID_0.01_23\t-0.017235250000\t.\t1815000\t1850000\t31,120,180\n+chr3L\t1850000\t1925000\tID_0.01_24\t-0.025997500000\t.\t1850000\t1925000\t51,160,44\n+chr3L\t1925000\t2155000\tID_0.01_25\t0.000083250000\t.\t1925000\t2155000\t31,120,180\n+chr3L\t2155000\t2260000\tID_0.01_26\t-0.040196500000\t.\t2155000\t2260000\t51,160,44\n+chr3L\t2260000\t2390000\tID_0.01_27\t-0.075185750000\t.\t2260000\t2390000\t31,120,180\n+chr3L\t2390000\t2460000\tID_0.01_28\t-0.072071000000\t.\t2390000\t2460000\t51,160,44\n+chr3L\t2460000\t2560000\tID_0.01_29\t-0.091323250000\t.\t2460000\t2560000\t31,120,180\n+chr3L\t2560000\t2600000\tID_0.01_30\t-0.091796750000\t.\t2560000\t2600000\t51,160,44\n+chr3L\t2600000\t2740000\tID_0.01_31\t-0.093485500000\t.\t2600000\t2740000\t31,120,180\n+chr3L\t2740000\t2885000\tID_0.01_32\t-0.089278750000\t.\t2740000\t2885000\t51,160,44\n+chr3L\t2885000\t2945000\tID_0.01_33\t-0.089725750000\t.\t2885000\t2945000\t31,120,180\n+chr3L\t2945000\t2960000\tID_0.01_34\t0.029899000000\t.\t2945000\t2960000\t51,160,44\n+chr3L\t2960000\t3045000\tID_0.01_35\t0.035686500000\t.\t2960000\t3045000\t31,120,180\n+chr3L\t3045000\t3135000\tID_0.01_36\t-0.004668750000\t.\t3045000\t3135000\t51,160,44\n+chr3L\t3135000\t3220000\tID_0.01_37\t0.055702000000\t.\t3135000\t3220000\t31,120,180\n+chr3L\t3220000\t3255000\tID_0.01_38\t-0.059463000000\t.\t3220000\t3255000\t51,160,44\n+chr3L\t3255000\t3315000\tID_0.01_39\t-0.045796000000\t.\t3255000\t3315000\t31,120,180\n+chr3L\t3315000\t3345000\tID_0.01_40\t-0.054998750000\t.\t3315000\t3345000\t51,160,44\n+chr3L\t3345000\t3475000\tID_0.01_41\t-0.042340750000\t.\t3345000\t3475000\t31,120,180\n+chr3L\t3475000\t3515000\tID_0.01_42\t-0.050976750000\t.\t3475000\t3515000\t51,160,44\n+chr3L\t3515000\t3545000\tID_0.01_43\t-0.012488000000\t.\t3515000\t3545000\t31,120,180\n+chr3L\t3545000\t3615000\tID_0.01_44\t0.024579250000\t.\t3545000\t3615000\t51,160,44\n+chr3L\t3615000\t3670000\tID_0.01_45\t0.019683000000\t.\t3615000\t3670000\t31,120,180\n+chr3L\t3670000\t3765000\tID_0.01_46\t0.099453250000\t.\t3670000\t3765000\t51,160,44\n+chr3L\t3765000\t3785000\tID_0.01_47\t-0.047454000000\t.\t3765000\t3785000\t31,120,180\n+chr3L\t3785000\t3825000\tID_0.01_48\t-0.041084000000\t.\t3785000\t3825000\t51,160,44\n+chr3L\t3825000\t3900000\tID_0.01_49\t-0.061011750000\t.\t3825000\t3900000\t31,120,180\n+chr3L\t3900000\t4000000\tID_0.01_50\t-0.068453500000\t.\t3900000\t4000000\t51,160,44\n+chr3L\t4000000\t4120000\tID_0.01_51\t-0.030078750000\t.\t4000000\t4120000\t31,120,180\n+chr3L\t4120000\t4165000\tID_0.01_5'..b'.\t22780000\t22885000\t31,120,180\n+chr3R\t22885000\t22985000\tID_0.01_1356\t-0.056834750000\t.\t22885000\t22985000\t51,160,44\n+chr3R\t22985000\t23110000\tID_0.01_1357\t-0.023781500000\t.\t22985000\t23110000\t31,120,180\n+chr3R\t23110000\t23185000\tID_0.01_1358\t-0.100625000000\t.\t23110000\t23185000\t51,160,44\n+chr3R\t23185000\t23195000\tID_0.01_1359\t-0.002947250000\t.\t23185000\t23195000\t31,120,180\n+chr3R\t23195000\t23415000\tID_0.01_1360\t-0.002757750000\t.\t23195000\t23415000\t51,160,44\n+chr3R\t23415000\t23560000\tID_0.01_1361\t-0.090027000000\t.\t23415000\t23560000\t31,120,180\n+chr3R\t23560000\t23770000\tID_0.01_1362\t-0.104602000000\t.\t23560000\t23770000\t51,160,44\n+chr3R\t23770000\t23815000\tID_0.01_1363\t-0.111910500000\t.\t23770000\t23815000\t31,120,180\n+chr3R\t23815000\t23920000\tID_0.01_1364\t-0.066076500000\t.\t23815000\t23920000\t51,160,44\n+chr3R\t23920000\t24030000\tID_0.01_1365\t-0.042184750000\t.\t23920000\t24030000\t31,120,180\n+chr3R\t24030000\t24160000\tID_0.01_1366\t-0.055795750000\t.\t24030000\t24160000\t51,160,44\n+chr3R\t24160000\t24205000\tID_0.01_1367\t-0.015467250000\t.\t24160000\t24205000\t31,120,180\n+chr3R\t24205000\t24345000\tID_0.01_1368\t-0.032601500000\t.\t24205000\t24345000\t51,160,44\n+chr3R\t24345000\t24375000\tID_0.01_1369\t-0.062306500000\t.\t24345000\t24375000\t31,120,180\n+chr3R\t24375000\t24450000\tID_0.01_1370\t-0.074939500000\t.\t24375000\t24450000\t51,160,44\n+chr3R\t24450000\t24625000\tID_0.01_1371\t-0.098360750000\t.\t24450000\t24625000\t31,120,180\n+chr3R\t24625000\t24745000\tID_0.01_1372\t-0.031713750000\t.\t24625000\t24745000\t51,160,44\n+chr3R\t24745000\t24885000\tID_0.01_1373\t-0.085896250000\t.\t24745000\t24885000\t31,120,180\n+chr3R\t24885000\t24995000\tID_0.01_1374\t-0.093237250000\t.\t24885000\t24995000\t51,160,44\n+chr3R\t24995000\t25090000\tID_0.01_1375\t-0.058978500000\t.\t24995000\t25090000\t31,120,180\n+chr3R\t25090000\t25165000\tID_0.01_1376\t0.036742250000\t.\t25090000\t25165000\t51,160,44\n+chr3R\t25165000\t25330000\tID_0.01_1377\t-0.046246500000\t.\t25165000\t25330000\t31,120,180\n+chr3R\t25330000\t25405000\tID_0.01_1378\t-0.083033250000\t.\t25330000\t25405000\t51,160,44\n+chr3R\t25405000\t25570000\tID_0.01_1379\t-0.005462250000\t.\t25405000\t25570000\t31,120,180\n+chr3R\t25570000\t25580000\tID_0.01_1380\t-0.046540750000\t.\t25570000\t25580000\t51,160,44\n+chr3R\t25580000\t25730000\tID_0.01_1381\t-0.018715750000\t.\t25580000\t25730000\t31,120,180\n+chr3R\t25730000\t25880000\tID_0.01_1382\t-0.008588750000\t.\t25730000\t25880000\t51,160,44\n+chr3R\t25880000\t25990000\tID_0.01_1383\t-0.105816250000\t.\t25880000\t25990000\t31,120,180\n+chr3R\t25990000\t26050000\tID_0.01_1384\t-0.090403000000\t.\t25990000\t26050000\t51,160,44\n+chr3R\t26050000\t26180000\tID_0.01_1385\t-0.093531500000\t.\t26050000\t26180000\t31,120,180\n+chr3R\t26180000\t26275000\tID_0.01_1386\t-0.114692750000\t.\t26180000\t26275000\t51,160,44\n+chr3R\t26275000\t26330000\tID_0.01_1387\t-0.100273500000\t.\t26275000\t26330000\t31,120,180\n+chr3R\t26330000\t26490000\tID_0.01_1388\t-0.092304000000\t.\t26330000\t26490000\t51,160,44\n+chr3R\t26490000\t26565000\tID_0.01_1389\t0.062796500000\t.\t26490000\t26565000\t31,120,180\n+chr3R\t26565000\t26640000\tID_0.01_1390\t-0.019744750000\t.\t26565000\t26640000\t51,160,44\n+chr3R\t26640000\t26715000\tID_0.01_1391\t-0.074307250000\t.\t26640000\t26715000\t31,120,180\n+chr3R\t26715000\t26870000\tID_0.01_1392\t-0.049789000000\t.\t26715000\t26870000\t51,160,44\n+chr3R\t26870000\t27045000\tID_0.01_1393\t-0.024990500000\t.\t26870000\t27045000\t31,120,180\n+chr3R\t27045000\t27155000\tID_0.01_1394\t-0.074189000000\t.\t27045000\t27155000\t51,160,44\n+chr3R\t27155000\t27185000\tID_0.01_1395\t-0.006099250000\t.\t27155000\t27185000\t31,120,180\n+chr3R\t27185000\t27250000\tID_0.01_1396\t-0.012810250000\t.\t27185000\t27250000\t51,160,44\n+chr3R\t27250000\t27385000\tID_0.01_1397\t-0.049902750000\t.\t27250000\t27385000\t31,120,180\n+chr3R\t27385000\t27420000\tID_0.01_1398\t-0.041305000000\t.\t27385000\t27420000\t51,160,44\n+chr3R\t27420000\t27570000\tID_0.01_1399\t-0.049929500000\t.\t27420000\t27570000\t31,120,180\n+chr3R\t27570000\t27700000\tID_0.01_1400\t-0.080943250000\t.\t27570000\t27700000\t51,160,44\n+chr3R\t27700000\t27750000\tID_0.01_1401\t-0.015350000000\t.\t27700000\t27750000\t31,120,180\n+chr3R\t27750000\t27770000\tID_0.01_1402\t0.013577250000\t.\t27750000\t27770000\t51,160,44\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicDifferentialTAD/rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicDifferentialTAD/rejected.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b"@@ -0,0 +1,1406 @@\n+# Created with HiCExplorer's hicDifferentialTAD version 3.7.2\n+# H0 'regions are equal' H0 is rejected for all p-value smaller or equal the user given p-value threshold; i.e. regions in this file are considered as differential.\n+# Rejected regions with Wilcoxon rank-sum test to p-value: 1.0 with used mode: all and modeReject: one \n+# Chromosome\tstart\tend\tname\tscore\tstrand\tp-value left-inter-TAD\tp-value right-inter-TAD\tp-value intra-TAD\tW left-inter-TAD\tW right-inter-TAD\tW intra-TAD\n+chr3L\t165000\t260000\tID_0.01_1\t-0.10316675\t.\tnan\t1.0\t1.0\tnan\t0.0\t0.0\n+chr3L\t260000\t335000\tID_0.01_2\t-0.026655\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t335000\t360000\tID_0.01_3\t-0.030848\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t360000\t485000\tID_0.01_4\t-0.0580815\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t485000\t525000\tID_0.01_5\t-0.07169775\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t525000\t680000\tID_0.01_6\t-0.1060405\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t680000\t705000\tID_0.01_7\t-0.0148855\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t705000\t740000\tID_0.01_8\t0.002784\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t740000\t870000\tID_0.01_9\t0.00949975\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t870000\t1010000\tID_0.01_10\t-0.09546975\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1010000\t1040000\tID_0.01_11\t-0.05182175\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1040000\t1110000\tID_0.01_12\t-0.05874875\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1110000\t1210000\tID_0.01_13\t-0.048349\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1210000\t1245000\tID_0.01_14\t-0.0567565\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1245000\t1300000\tID_0.01_15\t-0.0641435\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1300000\t1465000\tID_0.01_16\t-0.091379\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1465000\t1535000\tID_0.01_17\t-0.01307225\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1535000\t1580000\tID_0.01_18\t-0.08711525\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1580000\t1640000\tID_0.01_19\t-0.08235875\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1640000\t1670000\tID_0.01_20\t-0.0628755\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1670000\t1735000\tID_0.01_21\t-0.037945\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1735000\t1815000\tID_0.01_22\t-0.050313\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1815000\t1850000\tID_0.01_23\t-0.01723525\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1850000\t1925000\tID_0.01_24\t-0.0259975\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t1925000\t2155000\tID_0.01_25\t8.325e-05\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2155000\t2260000\tID_0.01_26\t-0.0401965\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2260000\t2390000\tID_0.01_27\t-0.07518575\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2390000\t2460000\tID_0.01_28\t-0.072071\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2460000\t2560000\tID_0.01_29\t-0.09132325\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2560000\t2600000\tID_0.01_30\t-0.09179675\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2600000\t2740000\tID_0.01_31\t-0.0934855\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2740000\t2885000\tID_0.01_32\t-0.08927875\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2885000\t2945000\tID_0.01_33\t-0.08972575\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2945000\t2960000\tID_0.01_34\t0.029899\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t2960000\t3045000\tID_0.01_35\t0.0356865\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3045000\t3135000\tID_0.01_36\t-0.00466875\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3135000\t3220000\tID_0.01_37\t0.055702\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3220000\t3255000\tID_0.01_38\t-0.059463\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3255000\t3315000\tID_0.01_39\t-0.045796\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3315000\t3345000\tID_0.01_40\t-0.05499875\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3345000\t3475000\tID_0.01_41\t-0.04234075\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3475000\t3515000\tID_0.01_42\t-0.05097675\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3515000\t3545000\tID_0.01_43\t-0.012488\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3545000\t3615000\tID_0.01_44\t0.02457925\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3615000\t3670000\tID_0.01_45\t0.019683\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3670000\t3765000\tID_0.01_46\t0.09945325\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3765000\t3785000\tID_0.01_47\t-0.047454\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3785000\t3825000\tID_0.01_48\t-0.041084\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3825000\t3900000\tID_0.01_49\t-0.06101175\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3L\t3900000\t4000000\tID_0.01_50\t-0.068453"..b'.0\t0.0\t0.0\t0.0\n+chr3R\t22380000\t22500000\tID_0.01_1350\t-0.055847\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22500000\t22520000\tID_0.01_1351\t-0.0631105\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22520000\t22605000\tID_0.01_1352\t-0.062648\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22605000\t22695000\tID_0.01_1353\t-0.011252\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22695000\t22780000\tID_0.01_1354\t-0.089033\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22780000\t22885000\tID_0.01_1355\t-0.04050025\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22885000\t22985000\tID_0.01_1356\t-0.05683475\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t22985000\t23110000\tID_0.01_1357\t-0.0237815\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23110000\t23185000\tID_0.01_1358\t-0.100625\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23185000\t23195000\tID_0.01_1359\t-0.00294725\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23195000\t23415000\tID_0.01_1360\t-0.00275775\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23415000\t23560000\tID_0.01_1361\t-0.090027\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23560000\t23770000\tID_0.01_1362\t-0.104602\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23770000\t23815000\tID_0.01_1363\t-0.1119105\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23815000\t23920000\tID_0.01_1364\t-0.0660765\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t23920000\t24030000\tID_0.01_1365\t-0.04218475\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24030000\t24160000\tID_0.01_1366\t-0.05579575\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24160000\t24205000\tID_0.01_1367\t-0.01546725\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24205000\t24345000\tID_0.01_1368\t-0.0326015\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24345000\t24375000\tID_0.01_1369\t-0.0623065\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24375000\t24450000\tID_0.01_1370\t-0.0749395\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24450000\t24625000\tID_0.01_1371\t-0.09836075\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24625000\t24745000\tID_0.01_1372\t-0.03171375\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24745000\t24885000\tID_0.01_1373\t-0.08589625\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24885000\t24995000\tID_0.01_1374\t-0.09323725\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t24995000\t25090000\tID_0.01_1375\t-0.0589785\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25090000\t25165000\tID_0.01_1376\t0.03674225\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25165000\t25330000\tID_0.01_1377\t-0.0462465\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25330000\t25405000\tID_0.01_1378\t-0.08303325\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25405000\t25570000\tID_0.01_1379\t-0.00546225\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25570000\t25580000\tID_0.01_1380\t-0.04654075\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25580000\t25730000\tID_0.01_1381\t-0.01871575\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25730000\t25880000\tID_0.01_1382\t-0.00858875\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25880000\t25990000\tID_0.01_1383\t-0.10581625\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t25990000\t26050000\tID_0.01_1384\t-0.090403\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26050000\t26180000\tID_0.01_1385\t-0.0935315\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26180000\t26275000\tID_0.01_1386\t-0.11469275\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26275000\t26330000\tID_0.01_1387\t-0.1002735\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26330000\t26490000\tID_0.01_1388\t-0.092304\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26490000\t26565000\tID_0.01_1389\t0.0627965\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26565000\t26640000\tID_0.01_1390\t-0.01974475\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26640000\t26715000\tID_0.01_1391\t-0.07430725\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26715000\t26870000\tID_0.01_1392\t-0.049789\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t26870000\t27045000\tID_0.01_1393\t-0.0249905\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27045000\t27155000\tID_0.01_1394\t-0.074189\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27155000\t27185000\tID_0.01_1395\t-0.00609925\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27185000\t27250000\tID_0.01_1396\t-0.01281025\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27250000\t27385000\tID_0.01_1397\t-0.04990275\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27385000\t27420000\tID_0.01_1398\t-0.041305\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27420000\t27570000\tID_0.01_1399\t-0.0499295\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27570000\t27700000\tID_0.01_1400\t-0.08094325\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27700000\t27750000\tID_0.01_1401\t-0.01535\t.\t1.0\t1.0\t1.0\t0.0\t0.0\t0.0\n+chr3R\t27750000\t27770000\tID_0.01_1402\t0.01357725\t.\t1.0\tnan\t1.0\t0.0\tnan\t0.0\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicFindRestrictionSites/reference_genome.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicFindRestrictionSites/reference_genome.fasta Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,2 @@ +>chr1 +CTACGGTACGAACGTACGGTACGcgtaCGNAGTCATG |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicFindRestrictionSites/restriction_sites.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicFindRestrictionSites/restriction_sites.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,4 @@ +chr1 5 9 . 0 + +chr1 13 17 . 0 + +chr1 18 22 . 0 + +chr1 24 28 . 0 + |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicHyperoptDetectLoops/loops.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicHyperoptDetectLoops/loops.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,3 @@ +# Created by HiCExplorer hicHyperoptDetectLoops 3.6 + +{'matrixFile': 'matrix.cool', 'maxLoopDistance': 2600000, 'maximumNumberOfLoops': 5, 'oet': 4.594451600287669, 'p': 0.07561093779253786, 'peakWidth': 2, 'pit': 68.07931954714506, 'pp': 0.021875258449572325, 'proteinFile': 'hicValidateLocations/GSM935376_hg19_Gm12878_Smc3.narrowPeak', 'resolution': 2, 'threads': 1, 'windowSize': 10} \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicInfo/hicInfo_output.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicInfo/hicInfo_output.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Matrix information file. Created with HiCExplorer's hicInfo version 3.7.2 +File: matrix_name.h5 +Size: 33,754 +Bin_length: 5000 +Sum of matrix: 37321.0 +Chromosomes:length: chr2L: 23011544 bp; chr2LHet: 368872 bp; chr2R: 21146708 bp; chr2RHet: 3288761 bp; chr3L: 24543557 bp; chr3LHet: 2555491 bp; chr3R: 27905053 bp; chr3RHet: 2517507 bp; chr4: 1351857 bp; chrM: 19517 bp; chrUextra: 29004656 bp; chrU: 10049037 bp; chrX: 22422827 bp; chrXHet: 204112 bp; chrYHet: 347038 bp; +Non-zero elements: 69,213 +Minimum (non zero): 1 +Maximum: 8 +NaN bins: 0 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicInfo_output.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicInfo_output.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,10 @@ +# Matrix information file. Created with HiCExplorer's hicInfo version 3.1 +File: matrix_name.h5 +Size: 3,383 +Bin_length: 50000 +Sum of matrix: 32798.5 +Chromosomes: chr2RHet, chr3RHet, chr2LHet, chr4, chrYHet, chr3L, chr2L, chrU, chrX, chrXHet, chr2R, chr3R, chrUextra, chrM, chr3LHet +Non-zero elements: 45,981 +Minimum (non zero): 1 +Maximum: 68 +NaN bins: 664 \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicInterIntraTAD/matrix.cool |
| b |
| Binary file test-data/hicInterIntraTAD/matrix.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicInterIntraTAD/output.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicInterIntraTAD/output.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,22 @@ +# Created with HiCExplorer's hicInterIntraTAD version 3.7.2 +# Chromosome start end name score strand inter_left_sum inter_right_sum inter_left_density inter_right_density inter_left_number_of_contacts inter_right_number_of_contacts inter_left_number_of_contacts_nnz inter_right_number_of_contacts_nnz intra_sum intra_number_of_contacts intra_number_of_contacts_nnz intra_density inter_left_intra_ratio inter_right_intra_ratio inter_left_inter_right_intra_ratio +chr2 17100000 18100000 region_0 0 + 0 148.64980341892507 0 1.0 0 90 0 90 289.00804022517053 100 100 1.0 0.0 0.5143448718696884 0.5143448718696884 +chr2 18100000 19100000 region_1 0 + 162.1124908492847 211.04026046280666 1.0 1.0 100 140 100 140 277.9356647725957 100 100 1.0 0.583273438412172 0.7593133491359512 1.3425867875481232 +chr2 19100000 20600000 region_2 0 + 223.14353637851622 150.01947633135822 1.0 1.0 150 90 150 90 556.143932925097 225 225 1.0 0.4012334274777925 0.269749371430369 0.6709827989081616 +chr2 20600000 21300000 region_3 0 + 171.34866125986417 274.4679914622871 1.0 1.0 105 84 105 84 149.85761183392816 49 49 1.0 1.1434097952244984 1.8315251931710472 2.9749349883955456 +chr2 21300000 22600000 region_4 0 + 283.89289960594425 768.874984677404 1.0 1.0 91 208 91 208 24180.36424789467 169 169 1.0 0.011740637845464306 0.03179749390021485 0.04353813174567915 +chr2 22600000 24300000 region_5 0 + 789.804014201572 321.70053830625835 1.0 1.0 221 238 221 238 659.9593561049022 289 289 1.0 1.1967464464221198 0.48745507633219043 1.6842015227543101 +chr2 24300000 25800000 region_6 0 + 340.44705127228065 836.790681935677 1.0 1.0 255 720 255 720 598.8884085354028 225 225 1.0 0.5684649200422041 1.3972397361673277 1.965704656209532 +chr2 25800000 30700000 region_7 0 + 852.3657188383157 1593.0953595672838 1.0 1.0 735 1421 735 1421 4153.286346671477 2401 2401 1.0 0.20522681262307327 0.3835746506724779 0.5888014632955512 +chr2 30700000 33700000 region_8 0 + 1644.3620053137968 315.02407146145276 1.0 1.0 1470 240 1470 240 1873.0714290428866 900 900 1.0 0.8778960480722525 0.16818582920910052 1.046081877281353 +chr2 33700000 34600000 region_9 0 + 351.38600814451206 204.32883091037917 1.0 1.0 270 153 270 153 245.00889544594847 81 81 1.0 1.434176532672184 0.8339649486541041 2.268141481326288 +chr2 34600000 36400000 region_10 0 + 213.88883777381795 379.5343566721307 1.0 1.0 162 288 162 288 770.6376988509402 324 324 1.0 0.27754785172427593 0.49249388816305717 0.7700417398873332 +chr2 36400000 38100000 region_11 0 + 399.4783208321819 189.4340956757372 1.0 1.0 306 136 306 136 635.9658356069232 289 289 1.0 0.6281443097504547 0.29786835246417603 0.9260126622146307 +chr2 38100000 39000000 region_12 0 + 209.82145375215833 74.59004956153072 1.0 1.0 153 45 153 45 229.67774089590498 81 81 1.0 0.9135471854334115 0.3247595925951596 1.2383067780285713 +chr2 39000000 39600000 region_13 0 + 87.2296637584025 120.04828267162685 1.0 1.0 54 72 54 72 114.2377217834551 36 36 1.0 0.7635802114799864 1.0508637672168046 1.814443978696791 +chr2 39600000 40900000 region_14 0 + 127.68593516818584 348.8073054441913 1.0 1.0 78 247 78 247 447.58733970743407 169 169 1.0 0.2852760206569915 0.7793055667575172 1.0645815874145086 +chr2 40900000 42900000 region_15 0 + 363.6155543954171 330.73139298156053 1.0 1.0 260 240 260 240 912.1015373488856 400 400 1.0 0.3986568813953566 0.3626037008367121 0.7612605822320687 +chr2 42900000 44200000 region_16 0 + 353.76150800590995 305.3562724757596 1.0 1.0 260 208 260 208 434.0150296605763 169 169 1.0 0.8150904550069866 0.7035615165552332 1.51865197156222 +chr2 44200000 45900000 region_17 0 + 321.3851510623236 309.7368872510572 1.0 1.0 221 221 221 221 667.4121186463332 289 289 1.0 0.4815392799791639 0.4640863996885097 0.9456256796676736 +chr2 45900000 47300000 region_18 0 + 330.1441180225245 330.3028710611577 1.0 1.0 238 238 238 238 509.86032585858186 196 196 1.0 0.6475187444062777 0.6478301101481911 1.2953488545544687 +chr2 47300000 49100000 region_19 0 + 330.3028710611577 0 1.0 0 238 0 238 0 737.4495555644096 324 324 1.0 0.44789893568836614 0.0 0.44789893568836614 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicInterIntraTAD/plot.png |
| b |
| Binary file test-data/hicInterIntraTAD/plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicInterIntraTAD/untreated_R1_domains_chr1_chr2.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicInterIntraTAD/untreated_R1_domains_chr1_chr2.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,20 @@ +chr2 17100000 18100000 ID_0.01_10 -0.230354000000 . 17100000 18100000 51,160,44 +chr2 18100000 19100000 ID_0.01_11 -0.513536500000 . 18100000 19100000 31,120,180 +chr2 19100000 20600000 ID_0.01_12 -0.420252500000 . 19100000 20600000 51,160,44 +chr2 20600000 21300000 ID_0.01_13 -0.998086500000 . 20600000 21300000 31,120,180 +chr2 21300000 22600000 ID_0.01_14 -0.859866000000 . 21300000 22600000 51,160,44 +chr2 22600000 24300000 ID_0.01_15 -0.281294000000 . 22600000 24300000 31,120,180 +chr2 24300000 25800000 ID_0.01_16 -1.036617500000 . 24300000 25800000 51,160,44 +chr2 25800000 30700000 ID_0.01_17 -0.147124500000 . 25800000 30700000 31,120,180 +chr2 30700000 33700000 ID_0.01_18 -1.013445500000 . 30700000 33700000 51,160,44 +chr2 33700000 34600000 ID_0.01_19 -1.338090000000 . 33700000 34600000 31,120,180 +chr2 34600000 36400000 ID_0.01_20 -0.632501500000 . 34600000 36400000 51,160,44 +chr2 36400000 38100000 ID_0.01_21 -0.925006000000 . 36400000 38100000 31,120,180 +chr2 38100000 39000000 ID_0.01_22 -0.911804000000 . 38100000 39000000 51,160,44 +chr2 39000000 39600000 ID_0.01_23 -0.474157000000 . 39000000 39600000 31,120,180 +chr2 39600000 40900000 ID_0.01_24 -0.483398000000 . 39600000 40900000 51,160,44 +chr2 40900000 42900000 ID_0.01_25 -0.701614500000 . 40900000 42900000 31,120,180 +chr2 42900000 44200000 ID_0.01_26 -0.658489500000 . 42900000 44200000 51,160,44 +chr2 44200000 45900000 ID_0.01_27 -1.406743500000 . 44200000 45900000 31,120,180 +chr2 45900000 47300000 ID_0.01_28 -0.656308000000 . 45900000 47300000 51,160,44 +chr2 47300000 49100000 ID_0.01_29 -0.003388500000 . 47300000 49100000 31,120,180 \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/100kbtad_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/100kbtad_domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,179 @@\n+1\t2600000\t3800000\tID_0.01_1\t-1.141686912309\t.\t2600000\t3800000\t31,120,180\n+1\t3800000\t6000000\tID_0.01_2\t-1.059483103498\t.\t3800000\t6000000\t51,160,44\n+1\t6000000\t7800000\tID_0.01_3\t-0.984430873493\t.\t6000000\t7800000\t31,120,180\n+1\t7800000\t8900000\tID_0.01_4\t-0.399067786162\t.\t7800000\t8900000\t51,160,44\n+1\t8900000\t9700000\tID_0.01_5\t-0.117593287650\t.\t8900000\t9700000\t31,120,180\n+1\t9700000\t10500000\tID_0.01_6\t-0.185496017524\t.\t9700000\t10500000\t51,160,44\n+1\t10500000\t11100000\tID_0.01_7\t-0.201392985635\t.\t10500000\t11100000\t31,120,180\n+1\t11100000\t12100000\tID_0.01_8\t-0.354700283296\t.\t11100000\t12100000\t51,160,44\n+1\t12100000\t13000000\tID_0.01_9\t-0.799256699715\t.\t12100000\t13000000\t31,120,180\n+1\t13000000\t13700000\tID_0.01_10\t-1.402270586960\t.\t13000000\t13700000\t51,160,44\n+1\t13700000\t15800000\tID_0.01_11\t-1.386012674902\t.\t13700000\t15800000\t31,120,180\n+1\t15800000\t16900000\tID_0.01_12\t-0.616324727763\t.\t15800000\t16900000\t51,160,44\n+1\t16900000\t18000000\tID_0.01_13\t-0.790309360336\t.\t16900000\t18000000\t31,120,180\n+1\t18000000\t19200000\tID_0.01_14\t-0.743221612017\t.\t18000000\t19200000\t51,160,44\n+1\t19200000\t20000000\tID_0.01_15\t-0.771014287578\t.\t19200000\t20000000\t31,120,180\n+1\t20000000\t21000000\tID_0.01_16\t-0.197406966417\t.\t20000000\t21000000\t51,160,44\n+1\t21000000\t23300000\tID_0.01_17\t-0.246857948260\t.\t21000000\t23300000\t31,120,180\n+1\t23300000\t24100000\tID_0.01_18\t-0.073204223258\t.\t23300000\t24100000\t51,160,44\n+1\t24100000\t25600000\tID_0.01_19\t-0.481483747078\t.\t24100000\t25600000\t31,120,180\n+1\t25600000\t26800000\tID_0.01_20\t-0.288019958082\t.\t25600000\t26800000\t51,160,44\n+1\t26800000\t27200000\tID_0.01_21\t-0.373426473072\t.\t26800000\t27200000\t31,120,180\n+1\t27200000\t28100000\tID_0.01_22\t-0.223857449717\t.\t27200000\t28100000\t51,160,44\n+1\t28100000\t29500000\tID_0.01_23\t-0.226553355171\t.\t28100000\t29500000\t31,120,180\n+1\t29500000\t31200000\tID_0.01_24\t-0.294342328563\t.\t29500000\t31200000\t51,160,44\n+1\t31200000\t32600000\tID_0.01_25\t-0.691915018713\t.\t31200000\t32600000\t31,120,180\n+1\t32600000\t34100000\tID_0.01_26\t-0.525120566221\t.\t32600000\t34100000\t51,160,44\n+1\t34100000\t35200000\tID_0.01_27\t-0.870691440603\t.\t34100000\t35200000\t31,120,180\n+1\t35200000\t36900000\tID_0.01_28\t-0.711717112535\t.\t35200000\t36900000\t51,160,44\n+1\t36900000\t37900000\tID_0.01_29\t-0.859237923761\t.\t36900000\t37900000\t31,120,180\n+1\t37900000\t39300000\tID_0.01_30\t-0.593840260031\t.\t37900000\t39300000\t51,160,44\n+1\t39300000\t40200000\tID_0.01_31\t-0.709231729337\t.\t39300000\t40200000\t31,120,180\n+1\t40200000\t40900000\tID_0.01_32\t-0.351235876672\t.\t40200000\t40900000\t51,160,44\n+1\t40900000\t41500000\tID_0.01_33\t-0.073064714746\t.\t40900000\t41500000\t31,120,180\n+1\t41500000\t43600000\tID_0.01_34\t-0.262432443657\t.\t41500000\t43600000\t51,160,44\n+1\t43600000\t44500000\tID_0.01_35\t0.149239103642\t.\t43600000\t44500000\t31,120,180\n+1\t44500000\t45200000\tID_0.01_36\t0.096413662017\t.\t44500000\t45200000\t51,160,44\n+1\t45200000\t46100000\tID_0.01_37\t-0.404853685700\t.\t45200000\t46100000\t31,120,180\n+1\t46100000\t46800000\tID_0.01_38\t-0.067313090808\t.\t46100000\t46800000\t51,160,44\n+1\t46800000\t47800000\tID_0.01_39\t-0.829091697703\t.\t46800000\t47800000\t31,120,180\n+1\t47800000\t49000000\tID_0.01_40\t-0.428048529291\t.\t47800000\t49000000\t51,160,44\n+1\t49000000\t50800000\tID_0.01_41\t-0.036098871211\t.\t49000000\t50800000\t31,120,180\n+1\t50800000\t51800000\tID_0.01_42\t-0.640230613455\t.\t50800000\t51800000\t51,160,44\n+1\t51800000\t52500000\tID_0.01_43\t-0.433531022931\t.\t51800000\t52500000\t31,120,180\n+1\t52500000\t53700000\tID_0.01_44\t-0.320908527204\t.\t52500000\t53700000\t51,160,44\n+1\t53700000\t55500000\tID_0.01_45\t-0.439064654323\t.\t53700000\t55500000\t31,120,180\n+1\t55500000\t57300000\tID_0.01_46\t-0.879707940385\t.\t55500000\t57300000\t51,160,44\n+1\t57300000\t59000000\tID_0.01_47\t-0.381026749753\t.\t57300000\t59000000\t31,120,180\n+1\t59000000\t60400000\tID_0.01_48\t-0.655963485561\t.\t59000000\t60400000\t51,160,44\n+1\t60400000\t61300000\tID_0.01_49\t-0.859845271814\t.\t60400000\t61300000\t31,120,180\n+1\t61300000\t62600000\tID_0.01_50\t-0.262470171293\t.\t61300000\t62600000\t51,160,44\n+1\t62600000\t63300000\tID_0.01_51\t-0.546928077555\t.\t62600000\t63300000\t31,120,180\n+1\t6330000'..b'.085993697651\t.\t183600000\t184700000\t51,160,44\n+1\t184700000\t186300000\tID_0.01_133\t-0.264326017277\t.\t184700000\t186300000\t31,120,180\n+1\t186300000\t187000000\tID_0.01_134\t-0.810844695593\t.\t186300000\t187000000\t51,160,44\n+1\t187000000\t189100000\tID_0.01_135\t-0.561032153453\t.\t187000000\t189100000\t31,120,180\n+1\t189100000\t190500000\tID_0.01_136\t-0.638786084967\t.\t189100000\t190500000\t51,160,44\n+1\t190500000\t192400000\tID_0.01_137\t-0.804987835576\t.\t190500000\t192400000\t31,120,180\n+1\t192400000\t193100000\tID_0.01_138\t-0.507139128164\t.\t192400000\t193100000\t51,160,44\n+1\t193100000\t196700000\tID_0.01_139\t-0.430679674288\t.\t193100000\t196700000\t31,120,180\n+1\t196700000\t197400000\tID_0.01_140\t-0.616769039323\t.\t196700000\t197400000\t51,160,44\n+1\t197400000\t198700000\tID_0.01_141\t-0.661933036585\t.\t197400000\t198700000\t31,120,180\n+1\t198700000\t199500000\tID_0.01_142\t-0.328622895529\t.\t198700000\t199500000\t51,160,44\n+1\t199500000\t200500000\tID_0.01_143\t-0.313487345050\t.\t199500000\t200500000\t31,120,180\n+1\t200500000\t201200000\tID_0.01_144\t-0.476811660882\t.\t200500000\t201200000\t51,160,44\n+1\t201200000\t202100000\tID_0.01_145\t-0.336680335423\t.\t201200000\t202100000\t31,120,180\n+1\t202100000\t203000000\tID_0.01_146\t-0.328206658579\t.\t202100000\t203000000\t51,160,44\n+1\t203000000\t204500000\tID_0.01_147\t-0.175368634940\t.\t203000000\t204500000\t31,120,180\n+1\t204500000\t205700000\tID_0.01_148\t-0.055292609383\t.\t204500000\t205700000\t51,160,44\n+1\t205700000\t206600000\tID_0.01_149\t-0.595915153530\t.\t205700000\t206600000\t31,120,180\n+1\t206600000\t208000000\tID_0.01_150\t-0.822116143046\t.\t206600000\t208000000\t51,160,44\n+1\t208000000\t210000000\tID_0.01_151\t-0.605461823805\t.\t208000000\t210000000\t31,120,180\n+1\t210000000\t211500000\tID_0.01_152\t-0.730355941393\t.\t210000000\t211500000\t51,160,44\n+1\t211500000\t213200000\tID_0.01_153\t-0.395995720491\t.\t211500000\t213200000\t31,120,180\n+1\t213200000\t214400000\tID_0.01_154\t-0.774652016856\t.\t213200000\t214400000\t51,160,44\n+1\t214400000\t215800000\tID_0.01_155\t-0.248691558239\t.\t214400000\t215800000\t31,120,180\n+1\t215800000\t218400000\tID_0.01_156\t-0.648407418733\t.\t215800000\t218400000\t51,160,44\n+1\t218400000\t220100000\tID_0.01_157\t-0.827592482183\t.\t218400000\t220100000\t31,120,180\n+1\t220100000\t221000000\tID_0.01_158\t-0.782329386852\t.\t220100000\t221000000\t51,160,44\n+1\t221000000\t222900000\tID_0.01_159\t-0.281723145889\t.\t221000000\t222900000\t31,120,180\n+1\t222900000\t223900000\tID_0.01_160\t-0.453846036859\t.\t222900000\t223900000\t51,160,44\n+1\t223900000\t225600000\tID_0.01_161\t-0.412075364480\t.\t223900000\t225600000\t31,120,180\n+1\t225600000\t226300000\tID_0.01_162\t-0.686074032274\t.\t225600000\t226300000\t51,160,44\n+1\t226300000\t227700000\tID_0.01_163\t-0.498861050155\t.\t226300000\t227700000\t31,120,180\n+1\t227700000\t228700000\tID_0.01_164\t-0.237089890217\t.\t227700000\t228700000\t51,160,44\n+1\t228700000\t229700000\tID_0.01_165\t-0.810630269570\t.\t228700000\t229700000\t31,120,180\n+1\t229700000\t230500000\tID_0.01_166\t-0.308673891608\t.\t229700000\t230500000\t51,160,44\n+1\t230500000\t231800000\tID_0.01_167\t-0.277432698909\t.\t230500000\t231800000\t31,120,180\n+1\t231800000\t233400000\tID_0.01_168\t-0.437570110362\t.\t231800000\t233400000\t51,160,44\n+1\t233400000\t234600000\tID_0.01_169\t-0.414319513122\t.\t233400000\t234600000\t31,120,180\n+1\t234600000\t235600000\tID_0.01_170\t-0.141395263545\t.\t234600000\t235600000\t51,160,44\n+1\t235600000\t236200000\tID_0.01_171\t-0.323799017466\t.\t235600000\t236200000\t31,120,180\n+1\t236200000\t236800000\tID_0.01_172\t-0.554960355802\t.\t236200000\t236800000\t51,160,44\n+1\t236800000\t237800000\tID_0.01_173\t-0.428483691552\t.\t236800000\t237800000\t31,120,180\n+1\t237800000\t240200000\tID_0.01_174\t-0.753565268993\t.\t237800000\t240200000\t51,160,44\n+1\t240200000\t241600000\tID_0.01_175\t-0.875271039667\t.\t240200000\t241600000\t31,120,180\n+1\t241600000\t243400000\tID_0.01_176\t-0.260297744910\t.\t241600000\t243400000\t51,160,44\n+1\t243400000\t244700000\tID_0.01_177\t-0.933246847344\t.\t243400000\t244700000\t31,120,180\n+1\t244700000\t245200000\tID_0.01_178\t-0.507093336860\t.\t244700000\t245200000\t51,160,44\n+1\t245200000\t247000000\tID_0.01_179\t-0.500640827349\t.\t245200000\t247000000\t31,120,180\n\\ No newline at end of file\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/10kbtad_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/10kbtad_domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,769 @@\n+1\t710000\t1250000\tID_0.01_1\t-1.092317509315\t.\t710000\t1250000\t31,120,180\n+1\t1250000\t1480000\tID_0.01_2\t-0.447503916673\t.\t1250000\t1480000\t51,160,44\n+1\t1480000\t1680000\tID_0.01_3\t-0.604504964540\t.\t1480000\t1680000\t31,120,180\n+1\t1680000\t1850000\tID_0.01_4\t-0.732633171546\t.\t1680000\t1850000\t51,160,44\n+1\t1850000\t2110000\tID_0.01_5\t-0.629554185360\t.\t1850000\t2110000\t31,120,180\n+1\t2110000\t2330000\tID_0.01_6\t-0.599226178976\t.\t2110000\t2330000\t51,160,44\n+1\t2330000\t2580000\tID_0.01_7\t-0.502359023333\t.\t2330000\t2580000\t31,120,180\n+1\t2580000\t2690000\tID_0.01_8\t-0.877928092599\t.\t2580000\t2690000\t51,160,44\n+1\t2690000\t3330000\tID_0.01_9\t-0.876074031445\t.\t2690000\t3330000\t31,120,180\n+1\t3330000\t3540000\tID_0.01_10\t-0.865581452964\t.\t3330000\t3540000\t51,160,44\n+1\t3540000\t3830000\tID_0.01_11\t-0.175894888290\t.\t3540000\t3830000\t31,120,180\n+1\t3830000\t4050000\tID_0.01_12\t-0.788906681678\t.\t3830000\t4050000\t51,160,44\n+1\t4050000\t5240000\tID_0.01_13\t-0.632755573429\t.\t4050000\t5240000\t31,120,180\n+1\t5240000\t5500000\tID_0.01_14\t-0.503708327228\t.\t5240000\t5500000\t51,160,44\n+1\t5500000\t5890000\tID_0.01_15\t-0.535834764679\t.\t5500000\t5890000\t31,120,180\n+1\t5890000\t6050000\tID_0.01_16\t-0.441476370945\t.\t5890000\t6050000\t51,160,44\n+1\t6050000\t6300000\tID_0.01_17\t-0.559846730427\t.\t6050000\t6300000\t31,120,180\n+1\t6300000\t6410000\tID_0.01_18\t0.002675653077\t.\t6300000\t6410000\t51,160,44\n+1\t6410000\t6530000\tID_0.01_19\t0.238899723051\t.\t6410000\t6530000\t31,120,180\n+1\t6530000\t6750000\tID_0.01_20\t-0.092340076456\t.\t6530000\t6750000\t51,160,44\n+1\t6750000\t6970000\tID_0.01_21\t-0.342531967121\t.\t6750000\t6970000\t31,120,180\n+1\t6970000\t7090000\tID_0.01_22\t0.315970506814\t.\t6970000\t7090000\t51,160,44\n+1\t7090000\t7270000\tID_0.01_23\t0.316345600741\t.\t7090000\t7270000\t31,120,180\n+1\t7270000\t7710000\tID_0.01_24\t0.041072322941\t.\t7270000\t7710000\t51,160,44\n+1\t7710000\t7830000\tID_0.01_25\t-0.367257028586\t.\t7710000\t7830000\t31,120,180\n+1\t7830000\t8020000\tID_0.01_26\t-0.060901177985\t.\t7830000\t8020000\t51,160,44\n+1\t8020000\t8410000\tID_0.01_27\t-0.372407842081\t.\t8020000\t8410000\t31,120,180\n+1\t8410000\t8920000\tID_0.01_28\t-0.353886989897\t.\t8410000\t8920000\t51,160,44\n+1\t8920000\t9170000\tID_0.01_29\t-0.155898280238\t.\t8920000\t9170000\t31,120,180\n+1\t9170000\t9320000\tID_0.01_30\t0.172890208942\t.\t9170000\t9320000\t51,160,44\n+1\t9320000\t9650000\tID_0.01_31\t0.230612768882\t.\t9320000\t9650000\t31,120,180\n+1\t9650000\t10000000\tID_0.01_32\t-0.364293326660\t.\t9650000\t10000000\t51,160,44\n+1\t10000000\t10240000\tID_0.01_33\t0.125733381547\t.\t10000000\t10240000\t31,120,180\n+1\t10240000\t10430000\tID_0.01_34\t0.185519613694\t.\t10240000\t10430000\t51,160,44\n+1\t10430000\t10560000\tID_0.01_35\t-0.068211721541\t.\t10430000\t10560000\t31,120,180\n+1\t10560000\t11070000\tID_0.01_36\t-0.209526581188\t.\t10560000\t11070000\t51,160,44\n+1\t11070000\t11320000\tID_0.01_37\t-0.442016430124\t.\t11070000\t11320000\t31,120,180\n+1\t11320000\t11710000\tID_0.01_38\t-0.153236335699\t.\t11320000\t11710000\t51,160,44\n+1\t11710000\t12080000\tID_0.01_39\t-0.291811622494\t.\t11710000\t12080000\t31,120,180\n+1\t12080000\t12300000\tID_0.01_40\t-0.378333995495\t.\t12080000\t12300000\t51,160,44\n+1\t12300000\t13000000\tID_0.01_41\t-0.259805470041\t.\t12300000\t13000000\t31,120,180\n+1\t13000000\t13365000\tID_0.01_42\t-1.067953037504\t.\t13000000\t13365000\t51,160,44\n+1\t13365000\t13780000\tID_0.01_43\t-1.156490175521\t.\t13365000\t13780000\t31,120,180\n+1\t13780000\t14310000\tID_0.01_44\t-1.051207076369\t.\t13780000\t14310000\t51,160,44\n+1\t14310000\t14620000\tID_0.01_45\t-0.562478325837\t.\t14310000\t14620000\t31,120,180\n+1\t14620000\t14870000\tID_0.01_46\t0.011917497078\t.\t14620000\t14870000\t51,160,44\n+1\t14870000\t15240000\tID_0.01_47\t-0.175593305400\t.\t14870000\t15240000\t31,120,180\n+1\t15240000\t15430000\tID_0.01_48\t0.732843695067\t.\t15240000\t15430000\t51,160,44\n+1\t15430000\t15640000\tID_0.01_49\t-0.097096568114\t.\t15430000\t15640000\t31,120,180\n+1\t15640000\t15850000\tID_0.01_50\t0.126020671904\t.\t15640000\t15850000\t51,160,44\n+1\t15850000\t16090000\tID_0.01_51\t-0.368966352544\t.\t15850000\t16090000\t31,120,180\n+1\t16090000\t16390000\tID_0.01_52\t-0.250126706658\t.\t16090000\t16390000\t51,160,44\n+1\t16390000\t16570000\tID_0.01_53\t-0.167971774967\t'..b'\t233980000\t234230000\tID_0.01_722\t0.136798678827\t.\t233980000\t234230000\t51,160,44\n+1\t234230000\t234620000\tID_0.01_723\t-0.186433248117\t.\t234230000\t234620000\t31,120,180\n+1\t234620000\t234740000\tID_0.01_724\t-0.360480782180\t.\t234620000\t234740000\t51,160,44\n+1\t234740000\t234860000\tID_0.01_725\t0.252946330572\t.\t234740000\t234860000\t31,120,180\n+1\t234860000\t235260000\tID_0.01_726\t0.754861401185\t.\t234860000\t235260000\t51,160,44\n+1\t235260000\t235670000\tID_0.01_727\t-0.448130419649\t.\t235260000\t235670000\t31,120,180\n+1\t235670000\t235950000\tID_0.01_728\t-0.370505842570\t.\t235670000\t235950000\t51,160,44\n+1\t235950000\t236260000\tID_0.01_729\t0.114611061122\t.\t235950000\t236260000\t31,120,180\n+1\t236260000\t236770000\tID_0.01_730\t-0.659932170847\t.\t236260000\t236770000\t51,160,44\n+1\t236770000\t237080000\tID_0.01_731\t-0.539837140524\t.\t236770000\t237080000\t31,120,180\n+1\t237080000\t237720000\tID_0.01_732\t-0.366344467581\t.\t237080000\t237720000\t51,160,44\n+1\t237720000\t237750000\tID_0.01_733\t-0.498859739673\t.\t237720000\t237750000\t31,120,180\n+1\t237750000\t237990000\tID_0.01_734\t-0.494796041471\t.\t237750000\t237990000\t51,160,44\n+1\t237990000\t238420000\tID_0.01_735\t-0.616794387136\t.\t237990000\t238420000\t31,120,180\n+1\t238420000\t238620000\tID_0.01_736\t-0.327163963493\t.\t238420000\t238620000\t51,160,44\n+1\t238620000\t239150000\tID_0.01_737\t-0.183581653147\t.\t238620000\t239150000\t31,120,180\n+1\t239150000\t239580000\tID_0.01_738\t-0.390241779515\t.\t239150000\t239580000\t51,160,44\n+1\t239580000\t240150000\tID_0.01_739\t-0.484242138670\t.\t239580000\t240150000\t31,120,180\n+1\t240150000\t240300000\tID_0.01_740\t-0.694851336560\t.\t240150000\t240300000\t51,160,44\n+1\t240300000\t240860000\tID_0.01_741\t-0.619962352140\t.\t240300000\t240860000\t31,120,180\n+1\t240860000\t241450000\tID_0.01_742\t-0.536630482238\t.\t240860000\t241450000\t51,160,44\n+1\t241450000\t241490000\tID_0.01_743\t-0.334722832403\t.\t241450000\t241490000\t31,120,180\n+1\t241490000\t241670000\tID_0.01_744\t-0.328186142869\t.\t241490000\t241670000\t51,160,44\n+1\t241670000\t242040000\tID_0.01_745\t-0.413822039303\t.\t241670000\t242040000\t31,120,180\n+1\t242040000\t242190000\tID_0.01_746\t-0.383218117849\t.\t242040000\t242190000\t51,160,44\n+1\t242190000\t242420000\tID_0.01_747\t-0.441379005101\t.\t242190000\t242420000\t31,120,180\n+1\t242420000\t242590000\tID_0.01_748\t-0.387824388577\t.\t242420000\t242590000\t51,160,44\n+1\t242590000\t243270000\tID_0.01_749\t-0.559328577036\t.\t242590000\t243270000\t31,120,180\n+1\t243270000\t243490000\tID_0.01_750\t-0.966884087888\t.\t243270000\t243490000\t51,160,44\n+1\t243490000\t243910000\tID_0.01_751\t-0.631207979149\t.\t243490000\t243910000\t31,120,180\n+1\t243910000\t244210000\tID_0.01_752\t0.015886430508\t.\t243910000\t244210000\t51,160,44\n+1\t244210000\t244440000\tID_0.01_753\t0.502079406996\t.\t244210000\t244440000\t31,120,180\n+1\t244440000\t244620000\tID_0.01_754\t-0.340301300275\t.\t244440000\t244620000\t51,160,44\n+1\t244620000\t244990000\tID_0.01_755\t-0.466221331340\t.\t244620000\t244990000\t31,120,180\n+1\t244990000\t245230000\tID_0.01_756\t-0.195814914535\t.\t244990000\t245230000\t51,160,44\n+1\t245230000\t245830000\tID_0.01_757\t-0.487584169638\t.\t245230000\t245830000\t31,120,180\n+1\t245830000\t246170000\tID_0.01_758\t-0.007526753428\t.\t245830000\t246170000\t51,160,44\n+1\t246170000\t246440000\tID_0.01_759\t-0.396857166679\t.\t246170000\t246440000\t31,120,180\n+1\t246440000\t246650000\tID_0.01_760\t0.008005968484\t.\t246440000\t246650000\t51,160,44\n+1\t246650000\t247000000\tID_0.01_761\t-0.510730845992\t.\t246650000\t247000000\t31,120,180\n+1\t247000000\t247090000\tID_0.01_762\t-0.548680889867\t.\t247000000\t247090000\t51,160,44\n+1\t247090000\t247360000\tID_0.01_763\t-0.540609317126\t.\t247090000\t247360000\t31,120,180\n+1\t247360000\t247530000\tID_0.01_764\t-0.311813169196\t.\t247360000\t247530000\t51,160,44\n+1\t247530000\t247730000\tID_0.01_765\t-0.510802935408\t.\t247530000\t247730000\t31,120,180\n+1\t247730000\t248090000\tID_0.01_766\t-0.497993016061\t.\t247730000\t248090000\t51,160,44\n+1\t248090000\t248630000\tID_0.01_767\t-0.633276044452\t.\t248090000\t248630000\t31,120,180\n+1\t248630000\t248750000\tID_0.01_768\t-0.866530333656\t.\t248630000\t248750000\t51,160,44\n+1\t248750000\t249080000\tID_0.01_769\t-0.884473908997\t.\t248750000\t249080000\t31,120,180\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/50kbtad_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/50kbtad_domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,355 @@\n+1\t1650000\t2600000\tID_0.01_1\t-0.941207732888\t.\t1650000\t2600000\t31,120,180\n+1\t2600000\t3300000\tID_0.01_2\t-1.237580853228\t.\t2600000\t3300000\t51,160,44\n+1\t3300000\t3800000\tID_0.01_3\t-1.151700420320\t.\t3300000\t3800000\t31,120,180\n+1\t3800000\t4550000\tID_0.01_4\t-1.041662687209\t.\t3800000\t4550000\t51,160,44\n+1\t4550000\t5500000\tID_0.01_5\t-0.688597101194\t.\t4550000\t5500000\t31,120,180\n+1\t5500000\t6050000\tID_0.01_6\t-0.628644578723\t.\t5500000\t6050000\t51,160,44\n+1\t6050000\t6750000\tID_0.01_7\t-0.895952939155\t.\t6050000\t6750000\t31,120,180\n+1\t6750000\t7250000\tID_0.01_8\t-0.511165876940\t.\t6750000\t7250000\t51,160,44\n+1\t7250000\t7700000\tID_0.01_9\t0.355926203340\t.\t7250000\t7700000\t31,120,180\n+1\t7700000\t8400000\tID_0.01_10\t-0.385973482757\t.\t7700000\t8400000\t51,160,44\n+1\t8400000\t8900000\tID_0.01_11\t-0.297633621417\t.\t8400000\t8900000\t31,120,180\n+1\t8900000\t9200000\tID_0.01_12\t-0.103062710178\t.\t8900000\t9200000\t51,160,44\n+1\t9200000\t9650000\tID_0.01_13\t0.381386755351\t.\t9200000\t9650000\t31,120,180\n+1\t9650000\t10500000\tID_0.01_14\t-0.447368843956\t.\t9650000\t10500000\t51,160,44\n+1\t10500000\t11100000\tID_0.01_15\t-0.359017600599\t.\t10500000\t11100000\t31,120,180\n+1\t11100000\t12050000\tID_0.01_16\t-0.555500948051\t.\t11100000\t12050000\t51,160,44\n+1\t12050000\t13200000\tID_0.01_17\t-0.558021048643\t.\t12050000\t13200000\t31,120,180\n+1\t13200000\t13700000\tID_0.01_18\t-1.424878334272\t.\t13200000\t13700000\t51,160,44\n+1\t13700000\t14350000\tID_0.01_19\t-1.417230081378\t.\t13700000\t14350000\t31,120,180\n+1\t14350000\t14900000\tID_0.01_20\t-0.674184421719\t.\t14350000\t14900000\t51,160,44\n+1\t14900000\t15400000\tID_0.01_21\t-0.120096103025\t.\t14900000\t15400000\t31,120,180\n+1\t15400000\t15850000\tID_0.01_22\t0.056591795677\t.\t15400000\t15850000\t51,160,44\n+1\t15850000\t16850000\tID_0.01_23\t-0.419813857869\t.\t15850000\t16850000\t31,120,180\n+1\t16850000\t17250000\tID_0.01_24\t-0.887068568084\t.\t16850000\t17250000\t51,160,44\n+1\t17250000\t18000000\tID_0.01_25\t-0.818151721874\t.\t17250000\t18000000\t31,120,180\n+1\t18000000\t18900000\tID_0.01_26\t-0.733730593234\t.\t18000000\t18900000\t51,160,44\n+1\t18900000\t19600000\tID_0.01_27\t-0.677565744037\t.\t18900000\t19600000\t31,120,180\n+1\t19600000\t20050000\tID_0.01_28\t-0.351217184289\t.\t19600000\t20050000\t51,160,44\n+1\t20050000\t21000000\tID_0.01_29\t-0.161369381439\t.\t20050000\t21000000\t31,120,180\n+1\t21000000\t21550000\tID_0.01_30\t-0.349470139952\t.\t21000000\t21550000\t51,160,44\n+1\t21550000\t22000000\tID_0.01_31\t-0.348222230703\t.\t21550000\t22000000\t31,120,180\n+1\t22000000\t22400000\tID_0.01_32\t-0.455156564539\t.\t22000000\t22400000\t51,160,44\n+1\t22400000\t23300000\tID_0.01_33\t-0.490329118409\t.\t22400000\t23300000\t31,120,180\n+1\t23300000\t24100000\tID_0.01_34\t-0.195454888302\t.\t23300000\t24100000\t51,160,44\n+1\t24100000\t24350000\tID_0.01_35\t-0.508833512761\t.\t24100000\t24350000\t31,120,180\n+1\t24350000\t25150000\tID_0.01_36\t-0.474766388632\t.\t24350000\t25150000\t51,160,44\n+1\t25150000\t25550000\tID_0.01_37\t0.009562997912\t.\t25150000\t25550000\t31,120,180\n+1\t25550000\t26150000\tID_0.01_38\t-0.725354576289\t.\t25550000\t26150000\t51,160,44\n+1\t26150000\t26800000\tID_0.01_39\t0.012086774053\t.\t26150000\t26800000\t31,120,180\n+1\t26800000\t27300000\tID_0.01_40\t-0.496773634611\t.\t26800000\t27300000\t51,160,44\n+1\t27300000\t28050000\tID_0.01_41\t-0.122171629693\t.\t27300000\t28050000\t31,120,180\n+1\t28050000\t28550000\tID_0.01_42\t-0.107449220090\t.\t28050000\t28550000\t51,160,44\n+1\t28550000\t28950000\tID_0.01_43\t-0.240858507387\t.\t28550000\t28950000\t31,120,180\n+1\t28950000\t29550000\tID_0.01_44\t-0.105648280303\t.\t28950000\t29550000\t51,160,44\n+1\t29550000\t30200000\tID_0.01_45\t-0.609240092390\t.\t29550000\t30200000\t31,120,180\n+1\t30200000\t30700000\tID_0.01_46\t0.199001543736\t.\t30200000\t30700000\t51,160,44\n+1\t30700000\t31200000\tID_0.01_47\t0.374849061907\t.\t30700000\t31200000\t31,120,180\n+1\t31200000\t32550000\tID_0.01_48\t-0.477190179719\t.\t31200000\t32550000\t51,160,44\n+1\t32550000\t32850000\tID_0.01_49\t-0.268222026026\t.\t32550000\t32850000\t31,120,180\n+1\t32850000\t33300000\tID_0.01_50\t-0.298708034680\t.\t32850000\t33300000\t51,160,44\n+1\t33300000\t34100000\tID_0.01_51\t-0.083861512239\t.\t33300000\t34100000\t31,120,180\n+1\t34100000\t35200000\tID_0.01_52\t-0.846782123854'..b'0.567164872602\t.\t216900000\t217550000\t51,160,44\n+1\t217550000\t217950000\tID_0.01_309\t-0.088531062983\t.\t217550000\t217950000\t31,120,180\n+1\t217950000\t218450000\tID_0.01_310\t-0.491793817527\t.\t217950000\t218450000\t51,160,44\n+1\t218450000\t219350000\tID_0.01_311\t-0.979772940001\t.\t218450000\t219350000\t31,120,180\n+1\t219350000\t220100000\tID_0.01_312\t-0.101493710653\t.\t219350000\t220100000\t51,160,44\n+1\t220100000\t221000000\tID_0.01_313\t-0.733308192699\t.\t220100000\t221000000\t31,120,180\n+1\t221000000\t221600000\tID_0.01_314\t-0.625329550485\t.\t221000000\t221600000\t51,160,44\n+1\t221600000\t222850000\tID_0.01_315\t-0.283589827130\t.\t221600000\t222850000\t31,120,180\n+1\t222850000\t223300000\tID_0.01_316\t-0.701532693961\t.\t222850000\t223300000\t51,160,44\n+1\t223300000\t223950000\tID_0.01_317\t-0.329194904976\t.\t223300000\t223950000\t31,120,180\n+1\t223950000\t224650000\tID_0.01_318\t-0.693325426207\t.\t223950000\t224650000\t51,160,44\n+1\t224650000\t225150000\tID_0.01_319\t-0.415239629422\t.\t224650000\t225150000\t31,120,180\n+1\t225150000\t225600000\tID_0.01_320\t-0.427095698297\t.\t225150000\t225600000\t51,160,44\n+1\t225600000\t226250000\tID_0.01_321\t-0.749526268506\t.\t225600000\t226250000\t31,120,180\n+1\t226250000\t227150000\tID_0.01_322\t-0.483975801961\t.\t226250000\t227150000\t51,160,44\n+1\t227150000\t227650000\tID_0.01_323\t-0.344592323152\t.\t227150000\t227650000\t31,120,180\n+1\t227650000\t228250000\tID_0.01_324\t-0.547382752542\t.\t227650000\t228250000\t51,160,44\n+1\t228250000\t228750000\tID_0.01_325\t-0.282268880865\t.\t228250000\t228750000\t31,120,180\n+1\t228750000\t229350000\tID_0.01_326\t-1.115505078998\t.\t228750000\t229350000\t51,160,44\n+1\t229350000\t229750000\tID_0.01_327\t-0.172204625487\t.\t229350000\t229750000\t31,120,180\n+1\t229750000\t230450000\tID_0.01_328\t-0.634061049313\t.\t229750000\t230450000\t51,160,44\n+1\t230450000\t231400000\tID_0.01_329\t-0.631580939212\t.\t230450000\t231400000\t31,120,180\n+1\t231400000\t231850000\tID_0.01_330\t-0.341969492802\t.\t231400000\t231850000\t51,160,44\n+1\t231850000\t232750000\tID_0.01_331\t-0.511463825939\t.\t231850000\t232750000\t31,120,180\n+1\t232750000\t233450000\tID_0.01_332\t-0.122171822866\t.\t232750000\t233450000\t51,160,44\n+1\t233450000\t234250000\tID_0.01_333\t-0.679144584592\t.\t233450000\t234250000\t31,120,180\n+1\t234250000\t234600000\tID_0.01_334\t0.050325184035\t.\t234250000\t234600000\t51,160,44\n+1\t234600000\t235250000\tID_0.01_335\t-0.380952588806\t.\t234600000\t235250000\t31,120,180\n+1\t235250000\t235650000\tID_0.01_336\t-0.694735894142\t.\t235250000\t235650000\t51,160,44\n+1\t235650000\t236250000\tID_0.01_337\t-0.342467573342\t.\t235650000\t236250000\t31,120,180\n+1\t236250000\t236750000\tID_0.01_338\t-0.793688969463\t.\t236250000\t236750000\t51,160,44\n+1\t236750000\t237100000\tID_0.01_339\t-0.592281337018\t.\t236750000\t237100000\t31,120,180\n+1\t237100000\t237950000\tID_0.01_340\t-0.345830223190\t.\t237100000\t237950000\t51,160,44\n+1\t237950000\t238450000\tID_0.01_341\t-0.802179124193\t.\t237950000\t238450000\t31,120,180\n+1\t238450000\t239150000\tID_0.01_342\t-0.285536719896\t.\t238450000\t239150000\t51,160,44\n+1\t239150000\t239600000\tID_0.01_343\t-0.387270948386\t.\t239150000\t239600000\t31,120,180\n+1\t239600000\t240150000\tID_0.01_344\t-0.583270038512\t.\t239600000\t240150000\t51,160,44\n+1\t240150000\t240850000\tID_0.01_345\t-0.918612135670\t.\t240150000\t240850000\t31,120,180\n+1\t240850000\t241650000\tID_0.01_346\t-0.628106996684\t.\t240850000\t241650000\t51,160,44\n+1\t241650000\t242200000\tID_0.01_347\t-0.572894062116\t.\t241650000\t242200000\t31,120,180\n+1\t242200000\t242600000\tID_0.01_348\t-0.629968298486\t.\t242200000\t242600000\t51,160,44\n+1\t242600000\t243350000\tID_0.01_349\t-0.649483941807\t.\t242600000\t243350000\t31,120,180\n+1\t243350000\t244600000\tID_0.01_350\t-1.199504248183\t.\t243350000\t244600000\t51,160,44\n+1\t244600000\t245250000\tID_0.01_351\t-0.563530506582\t.\t244600000\t245250000\t31,120,180\n+1\t245250000\t246150000\tID_0.01_352\t-0.686787834796\t.\t245250000\t246150000\t51,160,44\n+1\t246150000\t246650000\tID_0.01_353\t-0.335558918395\t.\t246150000\t246650000\t31,120,180\n+1\t246650000\t247000000\tID_0.01_354\t-0.564013263776\t.\t246650000\t247000000\t51,160,44\n+1\t247000000\t248050000\tID_0.01_355\t-0.755580115849\t.\t247000000\t248050000\t31,120,180\n\\ No newline at end of file\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/ctcf_plot/two_files_plot_1.pdf |
| b |
| Binary file test-data/hicMergeDomains/ctcf_plot/two_files_plot_1.pdf has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/ctcf_sorted.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/ctcf_sorted.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,3403 @@\n+chr1\t805186\t805436\t.\t0\t.\t59.5609057962358\t-1\t4.7429214225993\t125\n+chr1\t840030\t840280\t.\t0\t.\t83.6226028373057\t-1\t4.7429214225993\t125\n+chr1\t848233\t848483\t.\t0\t.\t21.7013707748217\t-1\t3.97409700379598\t125\n+chr1\t873538\t873788\t.\t0\t.\t19.5674784603862\t-1\t3.88351633069348\t125\n+chr1\t886823\t887073\t.\t0\t.\t22.5711320345953\t-1\t4.11312075496602\t125\n+chr1\t911486\t911736\t.\t0\t.\t31.509769734266\t-1\t4.27124510662348\t125\n+chr1\t919601\t919851\t.\t0\t.\t33.1859544183338\t-1\t4.7429214225993\t125\n+chr1\t937269\t937519\t.\t0\t.\t48.2208573550132\t-1\t4.7429214225993\t125\n+chr1\t950804\t951054\t.\t0\t.\t27.7376222191221\t-1\t4.296482367922\t125\n+chr1\t954689\t954939\t.\t0\t.\t19.1922365041399\t-1\t3.79979779059073\t125\n+chr1\t968355\t968605\t.\t0\t.\t27.9104706029461\t-1\t4.29525180136426\t125\n+chr1\t999239\t999489\t.\t0\t.\t67.3973204081303\t-1\t4.7429214225993\t125\n+chr1\t1057530\t1057780\t.\t0\t.\t88.0665088853952\t-1\t4.7429214225993\t125\n+chr1\t1166148\t1166398\t.\t0\t.\t27.9814352288374\t-1\t4.29482615193429\t125\n+chr1\t1200463\t1200713\t.\t0\t.\t33.5952614512378\t-1\t4.7429214225993\t125\n+chr1\t1225610\t1225860\t.\t0\t.\t73.9102584682168\t-1\t4.7429214225993\t125\n+chr1\t1227292\t1227542\t.\t0\t.\t69.7040984837778\t-1\t4.7429214225993\t125\n+chr1\t1235462\t1235712\t.\t0\t.\t45.538363572806\t-1\t4.7429214225993\t125\n+chr1\t1237377\t1237627\t.\t0\t.\t19.9924023420945\t-1\t3.87966283949506\t125\n+chr1\t1280051\t1280301\t.\t0\t.\t52.5126590486595\t-1\t4.7429214225993\t125\n+chr1\t1284662\t1284912\t.\t0\t.\t26.3007670733988\t-1\t4.30716073872335\t125\n+chr1\t1285194\t1285444\t.\t0\t.\t19.6869777946214\t-1\t3.882480265106\t125\n+chr1\t1307585\t1307668\t.\t0\t.\t98.4512721959962\t-1\t4.7429214225993\t33\n+chr1\t1334834\t1335084\t.\t0\t.\t45.7165675131359\t-1\t4.7429214225993\t125\n+chr1\t1337531\t1337625\t.\t0\t.\t129.568164313081\t-1\t4.7429214225993\t15\n+chr1\t1376405\t1376551\t.\t0\t.\t112.104098738192\t-1\t4.7429214225993\t78\n+chr1\t1440337\t1440587\t.\t0\t.\t50.3693879296427\t-1\t4.7429214225993\t125\n+chr1\t1486555\t1486805\t.\t0\t.\t23.5386437775045\t-1\t4.32716132803452\t125\n+chr1\t1509199\t1509449\t.\t0\t.\t24.0579975291309\t-1\t4.32323146812351\t125\n+chr1\t1533113\t1533363\t.\t0\t.\t28.1831148336541\t-1\t4.29344358599487\t125\n+chr1\t1597192\t1597442\t.\t0\t.\t40.4396667960704\t-1\t4.7429214225993\t125\n+chr1\t1610383\t1610633\t.\t0\t.\t18.8867819454862\t-1\t3.80287941044449\t125\n+chr1\t1720538\t1720788\t.\t0\t.\t20.2783981866113\t-1\t3.87717290488528\t125\n+chr1\t1790091\t1790341\t.\t0\t.\t20.1334751599979\t-1\t3.87840050291318\t125\n+chr1\t1837789\t1837915\t.\t0\t.\t147.268012144206\t-1\t4.7429214225993\t74\n+chr1\t1840463\t1840713\t.\t0\t.\t26.3851329756002\t-1\t4.30646077049034\t125\n+chr1\t1875555\t1875662\t.\t0\t.\t106.834270840707\t-1\t4.7429214225993\t32\n+chr1\t1891605\t1891733\t.\t0\t.\t131.407645767539\t-1\t4.7429214225993\t63\n+chr1\t1976452\t1976520\t.\t0\t.\t87.5358082894933\t-1\t4.7429214225993\t11\n+chr1\t1977991\t1978241\t.\t0\t.\t73.4031161610917\t-1\t4.7429214225993\t125\n+chr1\t1980938\t1981188\t.\t0\t.\t61.7452349072252\t-1\t4.7429214225993\t125\n+chr1\t2040119\t2040369\t.\t0\t.\t23.8201211984674\t-1\t4.32501595101874\t125\n+chr1\t2063702\t2063952\t.\t0\t.\t21.9975491279828\t-1\t3.97170648286736\t125\n+chr1\t2071507\t2071645\t.\t0\t.\t114.969306459524\t-1\t4.7429214225993\t67\n+chr1\t2105852\t2105978\t.\t0\t.\t122.600087913384\t-1\t4.7429214225993\t61\n+chr1\t2126654\t2126904\t.\t0\t.\t86.7497585482926\t-1\t4.7429214225993\t125\n+chr1\t2144503\t2144753\t.\t0\t.\t20.0994558159811\t-1\t3.87871962123126\t125\n+chr1\t2246665\t2246915\t.\t0\t.\t20.7731784135031\t-1\t3.9821096350928\t125\n+chr1\t2313240\t2313490\t.\t0\t.\t84.2342744659508\t-1\t4.7429214225993\t125\n+chr1\t2314098\t2314348\t.\t0\t.\t62.0405584533353\t-1\t4.7429214225993\t125\n+chr1\t2345876\t2346126\t.\t0\t.\t87.6097808292363\t-1\t4.7429214225993\t125\n+chr1\t2361551\t2361801\t.\t0\t.\t80.0672677773095\t-1\t4.7429214225993\t125\n+chr1\t2470816\t2471066\t.\t0\t.\t28.4737352542628\t-1\t4.29140585420779\t125\n+chr1\t2479588\t2479691\t.\t0\t.\t108.435096866948\t-1\t4.7429214225993\t75\n+chr1\t2493400\t2493650\t.\t0\t.\t34.0043068331574\t-1\t4.7429214225993\t125\n+chr1\t3236597\t3236847\t.\t0\t.\t26.8900011644677\t-1\t4.30265555395945\t125\n+chr1\t3333725\t3333975\t.\t0\t.\t31.1329672384982\t-1\t4.27373412851497\t125\n+chr1\t3341315\t3341565\t.\t0\t.\t74.7245302958789\t-1\t4.7429214225993\t125\n+chr1\t3369726\t3369976\t.\t0\t.\t106.444209601322\t-1\t4.74'..b'-1\t4.7429214225993\t125\n+chr1\t242161899\t242162149\t.\t0\t.\t44.297888867722\t-1\t4.7429214225993\t125\n+chr1\t242180997\t242181247\t.\t0\t.\t78.3741983761816\t-1\t4.7429214225993\t125\n+chr1\t242183188\t242183438\t.\t0\t.\t66.679819217778\t-1\t4.7429214225993\t125\n+chr1\t242292490\t242292740\t.\t0\t.\t32.4950929799733\t-1\t4.7429214225993\t125\n+chr1\t242588613\t242588863\t.\t0\t.\t21.7470007916771\t-1\t3.97378078432702\t125\n+chr1\t242618161\t242618411\t.\t0\t.\t78.5029082464728\t-1\t4.7429214225993\t125\n+chr1\t242630897\t242631147\t.\t0\t.\t102.227246099934\t-1\t4.7429214225993\t125\n+chr1\t242687307\t242687557\t.\t0\t.\t22.7287067377493\t-1\t4.11180672135341\t125\n+chr1\t242815149\t242815399\t.\t0\t.\t35.7768576072339\t-1\t4.7429214225993\t125\n+chr1\t243488683\t243488933\t.\t0\t.\t90.1078055184278\t-1\t4.7429214225993\t125\n+chr1\t243507297\t243507547\t.\t0\t.\t26.9963883881902\t-1\t4.30181824820205\t125\n+chr1\t243599201\t243599451\t.\t0\t.\t18.8414344411906\t-1\t3.80332673324125\t125\n+chr1\t243912162\t243912226\t.\t0\t.\t87.857332864143\t-1\t4.7429214225993\t51\n+chr1\t244110436\t244110686\t.\t0\t.\t46.3085476394558\t-1\t4.7429214225993\t125\n+chr1\t244374493\t244374743\t.\t0\t.\t25.7700067096386\t-1\t4.3108702504201\t125\n+chr1\t244436420\t244436627\t.\t0\t.\t283.127937666882\t-1\t4.7429214225993\t95\n+chr1\t244462883\t244463009\t.\t0\t.\t147.278221747753\t-1\t4.7429214225993\t70\n+chr1\t244577886\t244578136\t.\t0\t.\t32.9862979478918\t-1\t4.7429214225993\t125\n+chr1\t244615509\t244615759\t.\t0\t.\t33.1173735732974\t-1\t4.7429214225993\t125\n+chr1\t244766862\t244766927\t.\t0\t.\t97.0255477829226\t-1\t4.7429214225993\t47\n+chr1\t244960248\t244960356\t.\t0\t.\t129.583735802963\t-1\t4.7429214225993\t60\n+chr1\t244964535\t244964785\t.\t0\t.\t84.8099516070166\t-1\t4.7429214225993\t125\n+chr1\t244997073\t244997323\t.\t0\t.\t22.335859434006\t-1\t4.11501773629396\t125\n+chr1\t245206072\t245206218\t.\t0\t.\t123.855729926098\t-1\t4.7429214225993\t94\n+chr1\t245242471\t245242584\t.\t0\t.\t98.1825295407773\t-1\t4.7429214225993\t47\n+chr1\t245316353\t245316603\t.\t0\t.\t47.5885191255838\t-1\t4.7429214225993\t125\n+chr1\t245319815\t245320065\t.\t0\t.\t55.2508551342203\t-1\t4.7429214225993\t125\n+chr1\t245960970\t245961220\t.\t0\t.\t32.5771666146799\t-1\t4.7429214225993\t125\n+chr1\t246052206\t246052456\t.\t0\t.\t24.5061272930621\t-1\t4.31976515886242\t125\n+chr1\t246166517\t246166767\t.\t0\t.\t92.0980997998447\t-1\t4.7429214225993\t125\n+chr1\t246175619\t246175869\t.\t0\t.\t51.4488542084578\t-1\t4.7429214225993\t125\n+chr1\t246280539\t246280789\t.\t0\t.\t21.6377563313938\t-1\t3.97462352512303\t125\n+chr1\t246614163\t246614413\t.\t0\t.\t81.518747690178\t-1\t4.7429214225993\t125\n+chr1\t246655996\t246656246\t.\t0\t.\t109.37604786956\t-1\t4.7429214225993\t125\n+chr1\t246660775\t246660850\t.\t0\t.\t82.9851636747842\t-1\t4.7429214225993\t22\n+chr1\t246695891\t246696141\t.\t0\t.\t25.0855614617435\t-1\t4.31573949961708\t125\n+chr1\t246852894\t246853036\t.\t0\t.\t124.192301187883\t-1\t4.7429214225993\t82\n+chr1\t246859830\t246860080\t.\t0\t.\t30.9781608987903\t-1\t4.27498099617164\t125\n+chr1\t246862512\t246862762\t.\t0\t.\t68.6201993339489\t-1\t4.7429214225993\t125\n+chr1\t246917344\t246917412\t.\t0\t.\t91.59542672781\t-1\t4.7429214225993\t58\n+chr1\t247134742\t247134992\t.\t0\t.\t38.4463313194636\t-1\t4.7429214225993\t125\n+chr1\t247536155\t247536254\t.\t0\t.\t102.859260815154\t-1\t4.7429214225993\t38\n+chr1\t247537236\t247537486\t.\t0\t.\t44.0355783173363\t-1\t4.7429214225993\t125\n+chr1\t247553517\t247553579\t.\t0\t.\t95.9419919672686\t-1\t4.7429214225993\t59\n+chr1\t247844634\t247844884\t.\t0\t.\t59.3259049794319\t-1\t4.7429214225993\t125\n+chr1\t248100255\t248100505\t.\t0\t.\t80.4098611245686\t-1\t4.7429214225993\t125\n+chr1\t248406472\t248406722\t.\t0\t.\t90.7185193033561\t-1\t4.7429214225993\t125\n+chr1\t248782263\t248782513\t.\t0\t.\t63.6214662074559\t-1\t4.7429214225993\t125\n+chr1\t248785834\t248786084\t.\t0\t.\t39.8323966052336\t-1\t4.7429214225993\t125\n+chr1\t249101416\t249101666\t.\t0\t.\t67.566711609504\t-1\t4.7429214225993\t125\n+chr1\t249120786\t249121036\t.\t0\t.\t52.442416642201\t-1\t4.7429214225993\t125\n+chr1\t249135979\t249136229\t.\t0\t.\t49.8223747632579\t-1\t4.7429214225993\t125\n+chr1\t249152776\t249153026\t.\t0\t.\t29.3016121090888\t-1\t4.28584974050218\t125\n+chr1\t249200566\t249200816\t.\t0\t.\t63.5123370035645\t-1\t4.7429214225993\t125\n+chr1\t249218992\t249219242\t.\t0\t.\t83.8506766777808\t-1\t4.7429214225993\t125\n\\ No newline at end of file\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/merged_list.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/merged_list.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1287 @@\n+1\t710000\t1250000\tID_1\t-1.092317509315\t.\t710000\t1250000\t31,120,180\n+1\t1250000\t1480000\tID_2\t-0.447503916673\t.\t1250000\t1480000\t51,160,44\n+1\t1480000\t1680000\tID_3\t-0.604504964540\t.\t1480000\t1680000\t31,120,180\n+1\t1650000\t2600000\tID_4\t-0.941207732888\t.\t1650000\t2600000\t31,120,180\n+1\t1680000\t1850000\tID_5\t-0.732633171546\t.\t1680000\t1850000\t51,160,44\n+1\t1850000\t2110000\tID_6\t-0.629554185360\t.\t1850000\t2110000\t31,120,180\n+1\t2110000\t2330000\tID_7\t-0.599226178976\t.\t2110000\t2330000\t51,160,44\n+1\t2330000\t2580000\tID_8\t-0.502359023333\t.\t2330000\t2580000\t31,120,180\n+1\t2580000\t2690000\tID_9\t-0.877928092599\t.\t2580000\t2690000\t51,160,44\n+1\t2600000\t3300000\tID_10\t-1.237580853228\t.\t2600000\t3300000\t51,160,44\n+1\t2600000\t3800000\tID_11\t-1.141686912309\t.\t2600000\t3800000\t31,120,180\n+1\t2690000\t3330000\tID_12\t-0.876074031445\t.\t2690000\t3330000\t31,120,180\n+1\t3300000\t3800000\tID_13\t-1.151700420320\t.\t3300000\t3800000\t31,120,180\n+1\t3330000\t3540000\tID_14\t-0.865581452964\t.\t3330000\t3540000\t51,160,44\n+1\t3540000\t3830000\tID_15\t-0.175894888290\t.\t3540000\t3830000\t31,120,180\n+1\t3800000\t4550000\tID_16\t-1.041662687209\t.\t3800000\t4550000\t51,160,44\n+1\t3800000\t6000000\tID_17\t-1.059483103498\t.\t3800000\t6000000\t51,160,44\n+1\t3830000\t4050000\tID_18\t-0.788906681678\t.\t3830000\t4050000\t51,160,44\n+1\t4050000\t5240000\tID_19\t-0.632755573429\t.\t4050000\t5240000\t31,120,180\n+1\t4550000\t5500000\tID_20\t-0.688597101194\t.\t4550000\t5500000\t31,120,180\n+1\t5240000\t5500000\tID_21\t-0.503708327228\t.\t5240000\t5500000\t51,160,44\n+1\t5500000\t5890000\tID_22\t-0.535834764679\t.\t5500000\t5890000\t31,120,180\n+1\t5500000\t6050000\tID_23\t-0.628644578723\t.\t5500000\t6050000\t51,160,44\n+1\t5890000\t6050000\tID_24\t-0.441476370945\t.\t5890000\t6050000\t51,160,44\n+1\t6000000\t7800000\tID_25\t-0.984430873493\t.\t6000000\t7800000\t31,120,180\n+1\t6050000\t6300000\tID_26\t-0.559846730427\t.\t6050000\t6300000\t31,120,180\n+1\t6050000\t6750000\tID_27\t-0.895952939155\t.\t6050000\t6750000\t31,120,180\n+1\t6300000\t6410000\tID_28\t0.002675653077\t.\t6300000\t6410000\t51,160,44\n+1\t6410000\t6530000\tID_29\t0.238899723051\t.\t6410000\t6530000\t31,120,180\n+1\t6530000\t6750000\tID_30\t-0.092340076456\t.\t6530000\t6750000\t51,160,44\n+1\t6750000\t6970000\tID_31\t-0.342531967121\t.\t6750000\t6970000\t31,120,180\n+1\t6750000\t7250000\tID_32\t-0.511165876940\t.\t6750000\t7250000\t51,160,44\n+1\t6970000\t7090000\tID_33\t0.315970506814\t.\t6970000\t7090000\t51,160,44\n+1\t7090000\t7270000\tID_34\t0.316345600741\t.\t7090000\t7270000\t31,120,180\n+1\t7250000\t7700000\tID_35\t0.355926203340\t.\t7250000\t7700000\t31,120,180\n+1\t7270000\t7710000\tID_36\t0.041072322941\t.\t7270000\t7710000\t51,160,44\n+1\t7700000\t8400000\tID_37\t-0.385973482757\t.\t7700000\t8400000\t51,160,44\n+1\t7710000\t7830000\tID_38\t-0.367257028586\t.\t7710000\t7830000\t31,120,180\n+1\t7800000\t8900000\tID_39\t-0.399067786162\t.\t7800000\t8900000\t51,160,44\n+1\t7830000\t8020000\tID_40\t-0.060901177985\t.\t7830000\t8020000\t51,160,44\n+1\t8020000\t8410000\tID_41\t-0.372407842081\t.\t8020000\t8410000\t31,120,180\n+1\t8400000\t8900000\tID_42\t-0.297633621417\t.\t8400000\t8900000\t31,120,180\n+1\t8410000\t8920000\tID_43\t-0.353886989897\t.\t8410000\t8920000\t51,160,44\n+1\t8900000\t9200000\tID_44\t-0.103062710178\t.\t8900000\t9200000\t51,160,44\n+1\t8900000\t9700000\tID_45\t-0.117593287650\t.\t8900000\t9700000\t31,120,180\n+1\t8920000\t9170000\tID_46\t-0.155898280238\t.\t8920000\t9170000\t31,120,180\n+1\t9170000\t9320000\tID_47\t0.172890208942\t.\t9170000\t9320000\t51,160,44\n+1\t9200000\t9650000\tID_48\t0.381386755351\t.\t9200000\t9650000\t31,120,180\n+1\t9320000\t9650000\tID_49\t0.230612768882\t.\t9320000\t9650000\t31,120,180\n+1\t9650000\t10000000\tID_50\t-0.364293326660\t.\t9650000\t10000000\t51,160,44\n+1\t9650000\t10500000\tID_51\t-0.447368843956\t.\t9650000\t10500000\t51,160,44\n+1\t9700000\t10500000\tID_52\t-0.185496017524\t.\t9700000\t10500000\t51,160,44\n+1\t10000000\t10240000\tID_53\t0.125733381547\t.\t10000000\t10240000\t31,120,180\n+1\t10240000\t10430000\tID_54\t0.185519613694\t.\t10240000\t10430000\t51,160,44\n+1\t10430000\t10560000\tID_55\t-0.068211721541\t.\t10430000\t10560000\t31,120,180\n+1\t10500000\t11100000\tID_56\t-0.201392985635\t.\t10500000\t11100000\t31,120,180\n+1\t10560000\t11070000\tID_57\t-0.209526581188\t.\t10560000\t11070000\t51,160,44\n+1\t11070000\t11'..b'50000\t239150000\t51,160,44\n+1\t238620000\t239150000\tID_1238\t-0.183581653147\t.\t238620000\t239150000\t31,120,180\n+1\t239150000\t239580000\tID_1239\t-0.390241779515\t.\t239150000\t239580000\t51,160,44\n+1\t239150000\t239600000\tID_1240\t-0.387270948386\t.\t239150000\t239600000\t31,120,180\n+1\t239580000\t240150000\tID_1241\t-0.484242138670\t.\t239580000\t240150000\t31,120,180\n+1\t239600000\t240150000\tID_1242\t-0.583270038512\t.\t239600000\t240150000\t51,160,44\n+1\t240150000\t240300000\tID_1243\t-0.694851336560\t.\t240150000\t240300000\t51,160,44\n+1\t240150000\t240850000\tID_1244\t-0.918612135670\t.\t240150000\t240850000\t31,120,180\n+1\t240200000\t241600000\tID_1245\t-0.875271039667\t.\t240200000\t241600000\t31,120,180\n+1\t240300000\t240860000\tID_1246\t-0.619962352140\t.\t240300000\t240860000\t31,120,180\n+1\t240850000\t241650000\tID_1247\t-0.628106996684\t.\t240850000\t241650000\t51,160,44\n+1\t240860000\t241450000\tID_1248\t-0.536630482238\t.\t240860000\t241450000\t51,160,44\n+1\t241450000\t241490000\tID_1249\t-0.334722832403\t.\t241450000\t241490000\t31,120,180\n+1\t241490000\t241670000\tID_1250\t-0.328186142869\t.\t241490000\t241670000\t51,160,44\n+1\t241600000\t243400000\tID_1251\t-0.260297744910\t.\t241600000\t243400000\t51,160,44\n+1\t241650000\t242200000\tID_1252\t-0.572894062116\t.\t241650000\t242200000\t31,120,180\n+1\t241670000\t242040000\tID_1253\t-0.413822039303\t.\t241670000\t242040000\t31,120,180\n+1\t242040000\t242190000\tID_1254\t-0.383218117849\t.\t242040000\t242190000\t51,160,44\n+1\t242190000\t242420000\tID_1255\t-0.441379005101\t.\t242190000\t242420000\t31,120,180\n+1\t242200000\t242600000\tID_1256\t-0.629968298486\t.\t242200000\t242600000\t51,160,44\n+1\t242420000\t242590000\tID_1257\t-0.387824388577\t.\t242420000\t242590000\t51,160,44\n+1\t242590000\t243270000\tID_1258\t-0.559328577036\t.\t242590000\t243270000\t31,120,180\n+1\t242600000\t243350000\tID_1259\t-0.649483941807\t.\t242600000\t243350000\t31,120,180\n+1\t243270000\t243490000\tID_1260\t-0.966884087888\t.\t243270000\t243490000\t51,160,44\n+1\t243350000\t244600000\tID_1261\t-1.199504248183\t.\t243350000\t244600000\t51,160,44\n+1\t243400000\t244700000\tID_1262\t-0.933246847344\t.\t243400000\t244700000\t31,120,180\n+1\t243490000\t243910000\tID_1263\t-0.631207979149\t.\t243490000\t243910000\t31,120,180\n+1\t243910000\t244210000\tID_1264\t0.015886430508\t.\t243910000\t244210000\t51,160,44\n+1\t244210000\t244440000\tID_1265\t0.502079406996\t.\t244210000\t244440000\t31,120,180\n+1\t244440000\t244620000\tID_1266\t-0.340301300275\t.\t244440000\t244620000\t51,160,44\n+1\t244600000\t245250000\tID_1267\t-0.563530506582\t.\t244600000\t245250000\t31,120,180\n+1\t244620000\t244990000\tID_1268\t-0.466221331340\t.\t244620000\t244990000\t31,120,180\n+1\t244700000\t245200000\tID_1269\t-0.507093336860\t.\t244700000\t245200000\t51,160,44\n+1\t244990000\t245230000\tID_1270\t-0.195814914535\t.\t244990000\t245230000\t51,160,44\n+1\t245200000\t247000000\tID_1271\t-0.500640827349\t.\t245200000\t247000000\t31,120,180\n+1\t245230000\t245830000\tID_1272\t-0.487584169638\t.\t245230000\t245830000\t31,120,180\n+1\t245250000\t246150000\tID_1273\t-0.686787834796\t.\t245250000\t246150000\t51,160,44\n+1\t245830000\t246170000\tID_1274\t-0.007526753428\t.\t245830000\t246170000\t51,160,44\n+1\t246150000\t246650000\tID_1275\t-0.335558918395\t.\t246150000\t246650000\t31,120,180\n+1\t246170000\t246440000\tID_1276\t-0.396857166679\t.\t246170000\t246440000\t31,120,180\n+1\t246440000\t246650000\tID_1277\t0.008005968484\t.\t246440000\t246650000\t51,160,44\n+1\t246650000\t247000000\tID_1278\t-0.564013263776\t.\t246650000\t247000000\t51,160,44\n+1\t247000000\t247090000\tID_1279\t-0.548680889867\t.\t247000000\t247090000\t51,160,44\n+1\t247000000\t248050000\tID_1280\t-0.755580115849\t.\t247000000\t248050000\t31,120,180\n+1\t247090000\t247360000\tID_1281\t-0.540609317126\t.\t247090000\t247360000\t31,120,180\n+1\t247360000\t247530000\tID_1282\t-0.311813169196\t.\t247360000\t247530000\t51,160,44\n+1\t247530000\t247730000\tID_1283\t-0.510802935408\t.\t247530000\t247730000\t31,120,180\n+1\t247730000\t248090000\tID_1284\t-0.497993016061\t.\t247730000\t248090000\t51,160,44\n+1\t248090000\t248630000\tID_1285\t-0.633276044452\t.\t248090000\t248630000\t31,120,180\n+1\t248630000\t248750000\tID_1286\t-0.866530333656\t.\t248630000\t248750000\t51,160,44\n+1\t248750000\t249080000\tID_1287\t-0.884473908997\t.\t248750000\t249080000\t31,120,180\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/relationship.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/relationship.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1456 @@\n+1\tID_4\tID_5\n+1\tID_4\tID_6\n+1\tID_4\tID_7\n+1\tID_4\tID_8\n+1\tID_10\tID_9\n+1\tID_11\tID_9\n+1\tID_11\tID_10\n+1\tID_11\tID_12\n+1\tID_11\tID_13\n+1\tID_11\tID_14\n+1\tID_13\tID_14\n+1\tID_17\tID_16\n+1\tID_16\tID_18\n+1\tID_17\tID_18\n+1\tID_17\tID_19\n+1\tID_17\tID_20\n+1\tID_17\tID_21\n+1\tID_17\tID_22\n+1\tID_20\tID_21\n+1\tID_23\tID_24\n+1\tID_25\tID_26\n+1\tID_25\tID_27\n+1\tID_25\tID_28\n+1\tID_25\tID_29\n+1\tID_25\tID_30\n+1\tID_25\tID_31\n+1\tID_25\tID_32\n+1\tID_25\tID_33\n+1\tID_25\tID_34\n+1\tID_25\tID_35\n+1\tID_25\tID_36\n+1\tID_27\tID_26\n+1\tID_27\tID_28\n+1\tID_27\tID_29\n+1\tID_27\tID_30\n+1\tID_32\tID_31\n+1\tID_32\tID_33\n+1\tID_37\tID_38\n+1\tID_37\tID_40\n+1\tID_39\tID_37\n+1\tID_39\tID_40\n+1\tID_39\tID_41\n+1\tID_39\tID_42\n+1\tID_45\tID_44\n+1\tID_44\tID_46\n+1\tID_45\tID_46\n+1\tID_45\tID_47\n+1\tID_45\tID_48\n+1\tID_45\tID_49\n+1\tID_48\tID_47\n+1\tID_48\tID_49\n+1\tID_51\tID_50\n+1\tID_51\tID_52\n+1\tID_51\tID_53\n+1\tID_51\tID_54\n+1\tID_52\tID_50\n+1\tID_52\tID_53\n+1\tID_52\tID_54\n+1\tID_56\tID_57\n+1\tID_59\tID_58\n+1\tID_59\tID_61\n+1\tID_60\tID_58\n+1\tID_60\tID_61\n+1\tID_60\tID_62\n+1\tID_63\tID_64\n+1\tID_63\tID_65\n+1\tID_63\tID_66\n+1\tID_65\tID_64\n+1\tID_65\tID_66\n+1\tID_68\tID_67\n+1\tID_68\tID_69\n+1\tID_72\tID_71\n+1\tID_71\tID_73\n+1\tID_72\tID_73\n+1\tID_72\tID_74\n+1\tID_72\tID_75\n+1\tID_72\tID_76\n+1\tID_72\tID_77\n+1\tID_72\tID_78\n+1\tID_72\tID_79\n+1\tID_72\tID_81\n+1\tID_75\tID_74\n+1\tID_75\tID_76\n+1\tID_80\tID_81\n+1\tID_80\tID_82\n+1\tID_83\tID_84\n+1\tID_83\tID_85\n+1\tID_83\tID_86\n+1\tID_83\tID_87\n+1\tID_83\tID_88\n+1\tID_83\tID_89\n+1\tID_85\tID_84\n+1\tID_85\tID_86\n+1\tID_85\tID_87\n+1\tID_85\tID_88\n+1\tID_90\tID_91\n+1\tID_90\tID_93\n+1\tID_92\tID_90\n+1\tID_92\tID_91\n+1\tID_92\tID_93\n+1\tID_92\tID_94\n+1\tID_92\tID_95\n+1\tID_92\tID_96\n+1\tID_92\tID_97\n+1\tID_92\tID_98\n+1\tID_95\tID_94\n+1\tID_95\tID_96\n+1\tID_95\tID_97\n+1\tID_95\tID_98\n+1\tID_101\tID_102\n+1\tID_103\tID_102\n+1\tID_103\tID_104\n+1\tID_103\tID_106\n+1\tID_105\tID_104\n+1\tID_105\tID_106\n+1\tID_105\tID_107\n+1\tID_110\tID_109\n+1\tID_110\tID_111\n+1\tID_110\tID_112\n+1\tID_110\tID_113\n+1\tID_110\tID_114\n+1\tID_111\tID_109\n+1\tID_111\tID_112\n+1\tID_111\tID_113\n+1\tID_111\tID_114\n+1\tID_117\tID_115\n+1\tID_117\tID_116\n+1\tID_117\tID_118\n+1\tID_117\tID_119\n+1\tID_117\tID_120\n+1\tID_117\tID_121\n+1\tID_117\tID_122\n+1\tID_117\tID_123\n+1\tID_117\tID_124\n+1\tID_117\tID_125\n+1\tID_117\tID_126\n+1\tID_117\tID_127\n+1\tID_119\tID_118\n+1\tID_119\tID_120\n+1\tID_119\tID_121\n+1\tID_122\tID_123\n+1\tID_124\tID_125\n+1\tID_124\tID_126\n+1\tID_124\tID_127\n+1\tID_129\tID_128\n+1\tID_129\tID_130\n+1\tID_129\tID_131\n+1\tID_134\tID_132\n+1\tID_134\tID_133\n+1\tID_134\tID_135\n+1\tID_134\tID_136\n+1\tID_134\tID_137\n+1\tID_134\tID_138\n+1\tID_134\tID_139\n+1\tID_134\tID_140\n+1\tID_134\tID_141\n+1\tID_136\tID_137\n+1\tID_136\tID_138\n+1\tID_142\tID_143\n+1\tID_144\tID_142\n+1\tID_144\tID_143\n+1\tID_144\tID_145\n+1\tID_144\tID_146\n+1\tID_144\tID_147\n+1\tID_146\tID_145\n+1\tID_146\tID_147\n+1\tID_148\tID_149\n+1\tID_148\tID_150\n+1\tID_149\tID_150\n+1\tID_151\tID_152\n+1\tID_151\tID_153\n+1\tID_151\tID_154\n+1\tID_151\tID_155\n+1\tID_151\tID_156\n+1\tID_151\tID_157\n+1\tID_152\tID_153\n+1\tID_152\tID_154\n+1\tID_152\tID_155\n+1\tID_152\tID_156\n+1\tID_158\tID_159\n+1\tID_158\tID_161\n+1\tID_160\tID_158\n+1\tID_160\tID_161\n+1\tID_160\tID_162\n+1\tID_160\tID_163\n+1\tID_160\tID_164\n+1\tID_160\tID_165\n+1\tID_160\tID_167\n+1\tID_163\tID_164\n+1\tID_166\tID_167\n+1\tID_166\tID_168\n+1\tID_169\tID_170\n+1\tID_169\tID_171\n+1\tID_169\tID_172\n+1\tID_169\tID_173\n+1\tID_169\tID_174\n+1\tID_169\tID_175\n+1\tID_169\tID_176\n+1\tID_169\tID_177\n+1\tID_171\tID_170\n+1\tID_171\tID_172\n+1\tID_176\tID_177\n+1\tID_179\tID_178\n+1\tID_179\tID_181\n+1\tID_179\tID_182\n+1\tID_179\tID_183\n+1\tID_179\tID_184\n+1\tID_179\tID_185\n+1\tID_180\tID_178\n+1\tID_180\tID_181\n+1\tID_180\tID_182\n+1\tID_180\tID_183\n+1\tID_180\tID_184\n+1\tID_180\tID_185\n+1\tID_187\tID_186\n+1\tID_188\tID_187\n+1\tID_188\tID_189\n+1\tID_188\tID_190\n+1\tID_188\tID_191\n+1\tID_188\tID_192\n+1\tID_188\tID_193\n+1\tID_188\tID_194\n+1\tID_188\tID_195\n+1\tID_190\tID_191\n+1\tID_193\tID_194\n+1\tID_193\tID_195\n+1\tID_199\tID_201\n+1\tID_199\tID_202\n+1\tID_199\tID_203\n+1\tID_199\tID_204\n+1\tID_199\tID_205\n+1\tID_200\tID_201\n+1\tID_200\tID_202\n+1\tID_200\tID_203\n+1\tID_200\tID_204\n+1\tID_200\tID_205\n+1\tID_200\tID_206\n+1\tID_200\tID_208\n+1\tID_207\tID_206\n+1\tID_207\tID_208\n+1\tID_210\tID_211\n+1\tID_210\tID_212\n+1\tID_211\tID_212\n+1\tID_214\tID_213\n+1\tID_214\tID_216\n+1\tID_214\tID_217\n+1\tID_215\tID_213\n+1\tID_215'..b'\tID_1086\n+1\tID_1085\tID_1087\n+1\tID_1085\tID_1088\n+1\tID_1085\tID_1089\n+1\tID_1085\tID_1090\n+1\tID_1085\tID_1092\n+1\tID_1085\tID_1093\n+1\tID_1087\tID_1088\n+1\tID_1091\tID_1092\n+1\tID_1091\tID_1093\n+1\tID_1091\tID_1094\n+1\tID_1095\tID_1096\n+1\tID_1095\tID_1097\n+1\tID_1095\tID_1098\n+1\tID_1095\tID_1099\n+1\tID_1097\tID_1096\n+1\tID_1097\tID_1098\n+1\tID_1097\tID_1099\n+1\tID_1101\tID_1100\n+1\tID_1102\tID_1100\n+1\tID_1102\tID_1101\n+1\tID_1102\tID_1103\n+1\tID_1102\tID_1104\n+1\tID_1102\tID_1105\n+1\tID_1102\tID_1106\n+1\tID_1102\tID_1107\n+1\tID_1104\tID_1105\n+1\tID_1106\tID_1107\n+1\tID_1110\tID_1108\n+1\tID_1110\tID_1109\n+1\tID_1110\tID_1111\n+1\tID_1110\tID_1112\n+1\tID_1110\tID_1113\n+1\tID_1110\tID_1114\n+1\tID_1110\tID_1115\n+1\tID_1110\tID_1116\n+1\tID_1110\tID_1117\n+1\tID_1114\tID_1115\n+1\tID_1118\tID_1119\n+1\tID_1120\tID_1121\n+1\tID_1120\tID_1122\n+1\tID_1120\tID_1123\n+1\tID_1120\tID_1124\n+1\tID_1120\tID_1125\n+1\tID_1120\tID_1126\n+1\tID_1120\tID_1127\n+1\tID_1120\tID_1128\n+1\tID_1120\tID_1129\n+1\tID_1121\tID_1122\n+1\tID_1121\tID_1123\n+1\tID_1121\tID_1124\n+1\tID_1126\tID_1127\n+1\tID_1126\tID_1128\n+1\tID_1126\tID_1129\n+1\tID_1131\tID_1132\n+1\tID_1131\tID_1133\n+1\tID_1136\tID_1134\n+1\tID_1136\tID_1135\n+1\tID_1136\tID_1137\n+1\tID_1136\tID_1138\n+1\tID_1136\tID_1139\n+1\tID_1136\tID_1140\n+1\tID_1136\tID_1141\n+1\tID_1136\tID_1142\n+1\tID_1138\tID_1139\n+1\tID_1138\tID_1140\n+1\tID_1138\tID_1141\n+1\tID_1143\tID_1144\n+1\tID_1145\tID_1143\n+1\tID_1145\tID_1144\n+1\tID_1145\tID_1146\n+1\tID_1145\tID_1148\n+1\tID_1145\tID_1149\n+1\tID_1147\tID_1146\n+1\tID_1147\tID_1148\n+1\tID_1147\tID_1149\n+1\tID_1151\tID_1150\n+1\tID_1151\tID_1152\n+1\tID_1151\tID_1153\n+1\tID_1151\tID_1154\n+1\tID_1151\tID_1155\n+1\tID_1151\tID_1156\n+1\tID_1151\tID_1157\n+1\tID_1151\tID_1158\n+1\tID_1151\tID_1159\n+1\tID_1151\tID_1160\n+1\tID_1152\tID_1153\n+1\tID_1152\tID_1154\n+1\tID_1156\tID_1157\n+1\tID_1156\tID_1158\n+1\tID_1162\tID_1164\n+1\tID_1162\tID_1165\n+1\tID_1162\tID_1166\n+1\tID_1162\tID_1167\n+1\tID_1163\tID_1164\n+1\tID_1163\tID_1165\n+1\tID_1163\tID_1166\n+1\tID_1163\tID_1167\n+1\tID_1169\tID_1168\n+1\tID_1169\tID_1171\n+1\tID_1169\tID_1172\n+1\tID_1170\tID_1168\n+1\tID_1170\tID_1171\n+1\tID_1170\tID_1172\n+1\tID_1170\tID_1173\n+1\tID_1170\tID_1174\n+1\tID_1173\tID_1174\n+1\tID_1176\tID_1175\n+1\tID_1176\tID_1178\n+1\tID_1177\tID_1175\n+1\tID_1177\tID_1176\n+1\tID_1177\tID_1178\n+1\tID_1177\tID_1179\n+1\tID_1182\tID_1183\n+1\tID_1182\tID_1184\n+1\tID_1182\tID_1186\n+1\tID_1185\tID_1186\n+1\tID_1188\tID_1189\n+1\tID_1188\tID_1190\n+1\tID_1188\tID_1191\n+1\tID_1189\tID_1190\n+1\tID_1192\tID_1193\n+1\tID_1192\tID_1195\n+1\tID_1192\tID_1196\n+1\tID_1194\tID_1193\n+1\tID_1194\tID_1195\n+1\tID_1194\tID_1196\n+1\tID_1194\tID_1197\n+1\tID_1200\tID_1199\n+1\tID_1200\tID_1201\n+1\tID_1200\tID_1202\n+1\tID_1200\tID_1204\n+1\tID_1203\tID_1204\n+1\tID_1203\tID_1205\n+1\tID_1206\tID_1207\n+1\tID_1206\tID_1208\n+1\tID_1206\tID_1209\n+1\tID_1206\tID_1211\n+1\tID_1208\tID_1209\n+1\tID_1210\tID_1211\n+1\tID_1212\tID_1214\n+1\tID_1212\tID_1215\n+1\tID_1213\tID_1214\n+1\tID_1213\tID_1215\n+1\tID_1213\tID_1216\n+1\tID_1219\tID_1221\n+1\tID_1220\tID_1221\n+1\tID_1223\tID_1224\n+1\tID_1223\tID_1225\n+1\tID_1226\tID_1227\n+1\tID_1228\tID_1226\n+1\tID_1228\tID_1227\n+1\tID_1228\tID_1229\n+1\tID_1228\tID_1231\n+1\tID_1230\tID_1231\n+1\tID_1233\tID_1232\n+1\tID_1233\tID_1234\n+1\tID_1233\tID_1235\n+1\tID_1233\tID_1236\n+1\tID_1233\tID_1237\n+1\tID_1233\tID_1238\n+1\tID_1233\tID_1239\n+1\tID_1233\tID_1240\n+1\tID_1233\tID_1241\n+1\tID_1233\tID_1242\n+1\tID_1234\tID_1235\n+1\tID_1237\tID_1236\n+1\tID_1237\tID_1238\n+1\tID_1241\tID_1242\n+1\tID_1244\tID_1243\n+1\tID_1245\tID_1244\n+1\tID_1245\tID_1246\n+1\tID_1245\tID_1248\n+1\tID_1245\tID_1249\n+1\tID_1247\tID_1248\n+1\tID_1247\tID_1249\n+1\tID_1251\tID_1252\n+1\tID_1251\tID_1253\n+1\tID_1251\tID_1254\n+1\tID_1251\tID_1255\n+1\tID_1251\tID_1256\n+1\tID_1251\tID_1257\n+1\tID_1251\tID_1258\n+1\tID_1251\tID_1259\n+1\tID_1252\tID_1253\n+1\tID_1252\tID_1254\n+1\tID_1256\tID_1255\n+1\tID_1256\tID_1257\n+1\tID_1261\tID_1263\n+1\tID_1261\tID_1264\n+1\tID_1261\tID_1265\n+1\tID_1262\tID_1263\n+1\tID_1262\tID_1264\n+1\tID_1262\tID_1265\n+1\tID_1262\tID_1266\n+1\tID_1267\tID_1268\n+1\tID_1267\tID_1269\n+1\tID_1267\tID_1270\n+1\tID_1271\tID_1272\n+1\tID_1271\tID_1273\n+1\tID_1271\tID_1274\n+1\tID_1271\tID_1275\n+1\tID_1271\tID_1276\n+1\tID_1271\tID_1277\n+1\tID_1271\tID_1278\n+1\tID_1275\tID_1276\n+1\tID_1275\tID_1277\n+1\tID_1280\tID_1279\n+1\tID_1280\tID_1281\n+1\tID_1280\tID_1282\n+1\tID_1280\tID_1283\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeDomains/two_files_relation_ctcf.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/two_files_relation_ctcf.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,581 @@\n+1\tID_4\tID_5\n+1\tID_4\tID_6\n+1\tID_4\tID_7\n+1\tID_4\tID_8\n+1\tID_10\tID_9\n+1\tID_12\tID_13\n+1\tID_15\tID_16\n+1\tID_17\tID_15\n+1\tID_18\tID_19\n+1\tID_21\tID_22\n+1\tID_24\tID_23\n+1\tID_24\tID_25\n+1\tID_24\tID_26\n+1\tID_24\tID_27\n+1\tID_29\tID_28\n+1\tID_29\tID_30\n+1\tID_34\tID_35\n+1\tID_34\tID_36\n+1\tID_40\tID_41\n+1\tID_43\tID_42\n+1\tID_43\tID_44\n+1\tID_46\tID_45\n+1\tID_46\tID_47\n+1\tID_46\tID_48\n+1\tID_50\tID_51\n+1\tID_53\tID_52\n+1\tID_53\tID_54\n+1\tID_56\tID_57\n+1\tID_56\tID_58\n+1\tID_62\tID_63\n+1\tID_65\tID_64\n+1\tID_65\tID_66\n+1\tID_70\tID_71\n+1\tID_70\tID_72\n+1\tID_74\tID_73\n+1\tID_74\tID_75\n+1\tID_74\tID_76\n+1\tID_74\tID_77\n+1\tID_79\tID_78\n+1\tID_79\tID_80\n+1\tID_79\tID_81\n+1\tID_83\tID_82\n+1\tID_83\tID_84\n+1\tID_83\tID_85\n+1\tID_83\tID_86\n+1\tID_90\tID_89\n+1\tID_90\tID_91\n+1\tID_90\tID_92\n+1\tID_96\tID_95\n+1\tID_96\tID_97\n+1\tID_96\tID_98\n+1\tID_96\tID_99\n+1\tID_103\tID_102\n+1\tID_103\tID_104\n+1\tID_103\tID_105\n+1\tID_106\tID_107\n+1\tID_108\tID_109\n+1\tID_108\tID_110\n+1\tID_108\tID_111\n+1\tID_113\tID_112\n+1\tID_113\tID_114\n+1\tID_113\tID_115\n+1\tID_119\tID_120\n+1\tID_119\tID_121\n+1\tID_125\tID_126\n+1\tID_128\tID_127\n+1\tID_128\tID_129\n+1\tID_130\tID_131\n+1\tID_132\tID_133\n+1\tID_132\tID_134\n+1\tID_132\tID_135\n+1\tID_132\tID_136\n+1\tID_138\tID_139\n+1\tID_138\tID_140\n+1\tID_142\tID_143\n+1\tID_145\tID_146\n+1\tID_145\tID_147\n+1\tID_149\tID_148\n+1\tID_149\tID_150\n+1\tID_154\tID_153\n+1\tID_154\tID_155\n+1\tID_157\tID_156\n+1\tID_157\tID_158\n+1\tID_157\tID_159\n+1\tID_157\tID_160\n+1\tID_157\tID_161\n+1\tID_157\tID_162\n+1\tID_164\tID_163\n+1\tID_166\tID_167\n+1\tID_169\tID_170\n+1\tID_169\tID_171\n+1\tID_175\tID_176\n+1\tID_175\tID_177\n+1\tID_175\tID_178\n+1\tID_175\tID_179\n+1\tID_175\tID_180\n+1\tID_182\tID_181\n+1\tID_182\tID_183\n+1\tID_185\tID_186\n+1\tID_188\tID_187\n+1\tID_188\tID_189\n+1\tID_188\tID_190\n+1\tID_192\tID_191\n+1\tID_192\tID_193\n+1\tID_195\tID_194\n+1\tID_195\tID_196\n+1\tID_195\tID_197\n+1\tID_199\tID_200\n+1\tID_199\tID_201\n+1\tID_205\tID_206\n+1\tID_205\tID_207\n+1\tID_205\tID_208\n+1\tID_210\tID_211\n+1\tID_210\tID_212\n+1\tID_210\tID_213\n+1\tID_215\tID_214\n+1\tID_215\tID_216\n+1\tID_218\tID_219\n+1\tID_218\tID_220\n+1\tID_218\tID_221\n+1\tID_218\tID_222\n+1\tID_224\tID_223\n+1\tID_224\tID_225\n+1\tID_227\tID_228\n+1\tID_227\tID_229\n+1\tID_227\tID_230\n+1\tID_227\tID_231\n+1\tID_233\tID_232\n+1\tID_233\tID_234\n+1\tID_233\tID_235\n+1\tID_237\tID_236\n+1\tID_237\tID_238\n+1\tID_240\tID_239\n+1\tID_240\tID_241\n+1\tID_243\tID_242\n+1\tID_243\tID_244\n+1\tID_243\tID_245\n+1\tID_247\tID_248\n+1\tID_249\tID_250\n+1\tID_251\tID_252\n+1\tID_251\tID_253\n+1\tID_251\tID_254\n+1\tID_258\tID_259\n+1\tID_261\tID_262\n+1\tID_261\tID_263\n+1\tID_261\tID_264\n+1\tID_266\tID_265\n+1\tID_268\tID_269\n+1\tID_270\tID_271\n+1\tID_272\tID_273\n+1\tID_275\tID_274\n+1\tID_275\tID_276\n+1\tID_275\tID_277\n+1\tID_279\tID_278\n+1\tID_279\tID_280\n+1\tID_279\tID_281\n+1\tID_279\tID_282\n+1\tID_284\tID_285\n+1\tID_284\tID_286\n+1\tID_284\tID_287\n+1\tID_289\tID_290\n+1\tID_289\tID_291\n+1\tID_289\tID_292\n+1\tID_289\tID_293\n+1\tID_294\tID_295\n+1\tID_296\tID_297\n+1\tID_299\tID_300\n+1\tID_302\tID_303\n+1\tID_305\tID_304\n+1\tID_305\tID_306\n+1\tID_305\tID_307\n+1\tID_309\tID_308\n+1\tID_309\tID_310\n+1\tID_314\tID_315\n+1\tID_316\tID_317\n+1\tID_320\tID_321\n+1\tID_320\tID_322\n+1\tID_324\tID_325\n+1\tID_324\tID_326\n+1\tID_328\tID_327\n+1\tID_328\tID_329\n+1\tID_328\tID_330\n+1\tID_332\tID_333\n+1\tID_332\tID_334\n+1\tID_332\tID_335\n+1\tID_332\tID_336\n+1\tID_332\tID_337\n+1\tID_332\tID_338\n+1\tID_332\tID_339\n+1\tID_332\tID_340\n+1\tID_342\tID_343\n+1\tID_342\tID_344\n+1\tID_348\tID_347\n+1\tID_348\tID_349\n+1\tID_351\tID_352\n+1\tID_355\tID_356\n+1\tID_357\tID_358\n+1\tID_359\tID_360\n+1\tID_361\tID_362\n+1\tID_361\tID_363\n+1\tID_361\tID_364\n+1\tID_361\tID_365\n+1\tID_367\tID_368\n+1\tID_370\tID_371\n+1\tID_379\tID_380\n+1\tID_382\tID_381\n+1\tID_382\tID_383\n+1\tID_382\tID_384\n+1\tID_386\tID_387\n+1\tID_389\tID_388\n+1\tID_389\tID_390\n+1\tID_392\tID_393\n+1\tID_397\tID_398\n+1\tID_400\tID_401\n+1\tID_403\tID_404\n+1\tID_410\tID_409\n+1\tID_410\tID_411\n+1\tID_410\tID_412\n+1\tID_410\tID_413\n+1\tID_415\tID_416\n+1\tID_418\tID_417\n+1\tID_418\tID_419\n+1\tID_421\tID_422\n+1\tID_426\tID_425\n+1\tID_426\tID_427\n+1\tID_426\tID_428\n+1\tID_426\tID_429\n+1\tID_433\tID_434\n+1\tID_438\tID_437\n+1\tID_438\tID_439\n+1\tID_441\tID_442\n+1\tID_444\tID_445\n+1\tID_444\tID_446\n+1\tID_448\tID_447\n+1\tID_452\tID_453\n+1\tID_455\tID_454\n+1\tID_455\tID_456\n+1\tID_458\tID_457\n+1\tID_458\tID_459\n+1\tID_458\tID_460\n+1\tID_458\tID_4'..b'\tID_663\tID_664\n+1\tID_663\tID_665\n+1\tID_667\tID_668\n+1\tID_667\tID_669\n+1\tID_667\tID_670\n+1\tID_672\tID_671\n+1\tID_672\tID_673\n+1\tID_672\tID_674\n+1\tID_676\tID_675\n+1\tID_676\tID_677\n+1\tID_681\tID_680\n+1\tID_681\tID_682\n+1\tID_684\tID_683\n+1\tID_684\tID_685\n+1\tID_684\tID_686\n+1\tID_684\tID_687\n+1\tID_689\tID_690\n+1\tID_692\tID_691\n+1\tID_692\tID_693\n+1\tID_692\tID_694\n+1\tID_692\tID_695\n+1\tID_699\tID_698\n+1\tID_699\tID_700\n+1\tID_702\tID_703\n+1\tID_705\tID_706\n+1\tID_705\tID_707\n+1\tID_708\tID_709\n+1\tID_711\tID_710\n+1\tID_711\tID_712\n+1\tID_713\tID_714\n+1\tID_716\tID_715\n+1\tID_716\tID_717\n+1\tID_719\tID_720\n+1\tID_719\tID_721\n+1\tID_719\tID_722\n+1\tID_724\tID_723\n+1\tID_724\tID_725\n+1\tID_724\tID_726\n+1\tID_724\tID_727\n+1\tID_729\tID_728\n+1\tID_731\tID_732\n+1\tID_731\tID_733\n+1\tID_731\tID_734\n+1\tID_736\tID_737\n+1\tID_736\tID_738\n+1\tID_740\tID_741\n+1\tID_740\tID_742\n+1\tID_740\tID_743\n+1\tID_747\tID_746\n+1\tID_749\tID_750\n+1\tID_752\tID_751\n+1\tID_752\tID_753\n+1\tID_755\tID_756\n+1\tID_757\tID_758\n+1\tID_760\tID_759\n+1\tID_760\tID_761\n+1\tID_765\tID_766\n+1\tID_765\tID_767\n+1\tID_769\tID_770\n+1\tID_769\tID_771\n+1\tID_769\tID_772\n+1\tID_774\tID_775\n+1\tID_774\tID_776\n+1\tID_778\tID_777\n+1\tID_778\tID_779\n+1\tID_780\tID_781\n+1\tID_782\tID_783\n+1\tID_789\tID_790\n+1\tID_789\tID_791\n+1\tID_792\tID_793\n+1\tID_797\tID_796\n+1\tID_799\tID_800\n+1\tID_802\tID_801\n+1\tID_802\tID_803\n+1\tID_805\tID_804\n+1\tID_805\tID_806\n+1\tID_808\tID_809\n+1\tID_811\tID_812\n+1\tID_811\tID_813\n+1\tID_815\tID_814\n+1\tID_815\tID_816\n+1\tID_822\tID_821\n+1\tID_822\tID_823\n+1\tID_824\tID_825\n+1\tID_826\tID_827\n+1\tID_831\tID_830\n+1\tID_831\tID_832\n+1\tID_834\tID_835\n+1\tID_836\tID_837\n+1\tID_839\tID_838\n+1\tID_839\tID_840\n+1\tID_839\tID_841\n+1\tID_842\tID_843\n+1\tID_842\tID_844\n+1\tID_842\tID_845\n+1\tID_842\tID_846\n+1\tID_848\tID_847\n+1\tID_848\tID_849\n+1\tID_850\tID_851\n+1\tID_853\tID_852\n+1\tID_853\tID_854\n+1\tID_858\tID_857\n+1\tID_858\tID_859\n+1\tID_861\tID_862\n+1\tID_864\tID_865\n+1\tID_867\tID_866\n+1\tID_867\tID_868\n+1\tID_867\tID_869\n+1\tID_871\tID_870\n+1\tID_873\tID_874\n+1\tID_873\tID_875\n+1\tID_877\tID_878\n+1\tID_880\tID_879\n+1\tID_880\tID_881\n+1\tID_880\tID_882\n+1\tID_884\tID_883\n+1\tID_884\tID_885\n+1\tID_884\tID_886\n+1\tID_884\tID_887\n+1\tID_884\tID_888\n+1\tID_890\tID_889\n+1\tID_890\tID_891\n+1\tID_890\tID_892\n+1\tID_895\tID_896\n+1\tID_897\tID_898\n+1\tID_902\tID_903\n+1\tID_905\tID_906\n+1\tID_905\tID_907\n+1\tID_909\tID_908\n+1\tID_909\tID_910\n+1\tID_912\tID_911\n+1\tID_912\tID_913\n+1\tID_912\tID_914\n+1\tID_912\tID_915\n+1\tID_912\tID_916\n+1\tID_920\tID_919\n+1\tID_922\tID_923\n+1\tID_925\tID_926\n+1\tID_925\tID_927\n+1\tID_931\tID_932\n+1\tID_934\tID_935\n+1\tID_934\tID_936\n+1\tID_934\tID_937\n+1\tID_939\tID_938\n+1\tID_939\tID_940\n+1\tID_942\tID_941\n+1\tID_942\tID_943\n+1\tID_942\tID_944\n+1\tID_945\tID_946\n+1\tID_949\tID_950\n+1\tID_949\tID_951\n+1\tID_949\tID_952\n+1\tID_954\tID_953\n+1\tID_954\tID_955\n+1\tID_954\tID_956\n+1\tID_958\tID_957\n+1\tID_960\tID_961\n+1\tID_962\tID_963\n+1\tID_965\tID_964\n+1\tID_969\tID_970\n+1\tID_973\tID_974\n+1\tID_975\tID_976\n+1\tID_975\tID_977\n+1\tID_975\tID_978\n+1\tID_980\tID_981\n+1\tID_980\tID_982\n+1\tID_980\tID_983\n+1\tID_985\tID_986\n+1\tID_985\tID_987\n+1\tID_991\tID_992\n+1\tID_991\tID_993\n+1\tID_991\tID_994\n+1\tID_996\tID_997\n+1\tID_999\tID_998\n+1\tID_999\tID_1000\n+1\tID_999\tID_1001\n+1\tID_1003\tID_1002\n+1\tID_1003\tID_1004\n+1\tID_1003\tID_1005\n+1\tID_1007\tID_1008\n+1\tID_1007\tID_1009\n+1\tID_1013\tID_1014\n+1\tID_1013\tID_1015\n+1\tID_1013\tID_1016\n+1\tID_1013\tID_1017\n+1\tID_1019\tID_1018\n+1\tID_1019\tID_1020\n+1\tID_1019\tID_1021\n+1\tID_1022\tID_1023\n+1\tID_1025\tID_1024\n+1\tID_1025\tID_1026\n+1\tID_1032\tID_1033\n+1\tID_1035\tID_1036\n+1\tID_1038\tID_1039\n+1\tID_1038\tID_1040\n+1\tID_1038\tID_1041\n+1\tID_1047\tID_1048\n+1\tID_1047\tID_1049\n+1\tID_1051\tID_1052\n+1\tID_1053\tID_1054\n+1\tID_1055\tID_1056\n+1\tID_1055\tID_1057\n+1\tID_1061\tID_1062\n+1\tID_1066\tID_1067\n+1\tID_1069\tID_1070\n+1\tID_1072\tID_1073\n+1\tID_1075\tID_1074\n+1\tID_1075\tID_1076\n+1\tID_1079\tID_1080\n+1\tID_1082\tID_1081\n+1\tID_1084\tID_1085\n+1\tID_1084\tID_1086\n+1\tID_1088\tID_1089\n+1\tID_1088\tID_1090\n+1\tID_1092\tID_1091\n+1\tID_1092\tID_1093\n+1\tID_1097\tID_1096\n+1\tID_1097\tID_1098\n+1\tID_1097\tID_1099\n+1\tID_1097\tID_1100\n+1\tID_1102\tID_1103\n+1\tID_1102\tID_1104\n+1\tID_1106\tID_1105\n+1\tID_1108\tID_1109\n+1\tID_1108\tID_1110\n+1\tID_1113\tID_1112\n+1\tID_1113\tID_1114\n+1\tID_1113\tID_1115\n+1\tID_1113\tID_1116\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeLoops/gm12878_10kb.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeLoops/gm12878_10kb.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1028 @@\n+1\t10000\t20000\t1\t250000\t260000\t0.001\n+1\t140000\t150000\t1\t680000\t690000\t0.001\n+1\t540000\t550000\t1\t640000\t650000\t0.001\n+1\t630000\t640000\t1\t1140000\t1150000\t0.001\n+1\t1050000\t1060000\t1\t1180000\t1190000\t0.001\n+1\t1310000\t1320000\t1\t1410000\t1420000\t0.001\n+1\t1710000\t1720000\t1\t1830000\t1840000\t0.001\n+1\t1870000\t1880000\t1\t3340000\t3350000\t0.0019430592210407135\n+1\t2120000\t2130000\t1\t2310000\t2320000\t0.001\n+1\t2110000\t2120000\t1\t2710000\t2720000\t0.001\n+1\t2080000\t2090000\t1\t3330000\t3340000\t0.001\n+1\t2130000\t2140000\t1\t3570000\t3580000\t0.001\n+1\t2120000\t2130000\t1\t2480000\t2490000\t0.001\n+1\t2480000\t2490000\t1\t3570000\t3580000\t0.001\n+1\t2340000\t2350000\t1\t3340000\t3350000\t0.001\n+1\t2340000\t2350000\t1\t2480000\t2490000\t0.001\n+1\t2590000\t2600000\t1\t3300000\t3310000\t0.001\n+1\t2580000\t2590000\t1\t2680000\t2690000\t0.001\n+1\t2600000\t2610000\t1\t3170000\t3180000\t0.001\n+1\t2850000\t2860000\t1\t4400000\t4410000\t0.001\n+1\t2860000\t2870000\t1\t4770000\t4780000\t0.001\n+1\t2850000\t2860000\t1\t4160000\t4170000\t0.001\n+1\t3070000\t3080000\t1\t4190000\t4200000\t0.001\n+1\t3110000\t3120000\t1\t4480000\t4490000\t0.001\n+1\t3240000\t3250000\t1\t4220000\t4230000\t0.001\n+1\t3290000\t3300000\t1\t4380000\t4390000\t0.001\n+1\t3400000\t3410000\t1\t3530000\t3540000\t0.001\n+1\t3540000\t3550000\t1\t3640000\t3650000\t0.001\n+1\t3820000\t3830000\t1\t5510000\t5520000\t0.001\n+1\t3820000\t3830000\t1\t4880000\t4890000\t0.001\n+1\t3820000\t3830000\t1\t5800000\t5810000\t0.001\n+1\t3830000\t3840000\t1\t4710000\t4720000\t0.001\n+1\t3840000\t3850000\t1\t3990000\t4000000\t0.001\n+1\t3840000\t3850000\t1\t4430000\t4440000\t0.001\n+1\t4190000\t4200000\t1\t5430000\t5440000\t0.001\n+1\t4010000\t4020000\t1\t5790000\t5800000\t0.001\n+1\t4150000\t4160000\t1\t5660000\t5670000\t0.001\n+1\t4710000\t4720000\t1\t4880000\t4890000\t0.001\n+1\t4280000\t4290000\t1\t5250000\t5260000\t0.001\n+1\t5570000\t5580000\t1\t5970000\t5980000\t0.001\n+1\t6770000\t6780000\t1\t7700000\t7710000\t0.001\n+1\t6540000\t6550000\t1\t6700000\t6710000\t0.001\n+1\t6530000\t6540000\t1\t7270000\t7280000\t0.001\n+1\t6780000\t6790000\t1\t7130000\t7140000\t0.001\n+1\t6770000\t6780000\t1\t7270000\t7280000\t0.001\n+1\t6850000\t6860000\t1\t6950000\t6960000\t0.001\n+1\t7100000\t7110000\t1\t7700000\t7710000\t0.001\n+1\t7450000\t7460000\t1\t7550000\t7560000\t0.001\n+1\t7860000\t7870000\t1\t7960000\t7970000\t0.001\n+1\t8080000\t8090000\t1\t8370000\t8380000\t0.001\n+1\t8050000\t8060000\t1\t8800000\t8810000\t0.001\n+1\t8140000\t8150000\t1\t8240000\t8250000\t0.001\n+1\t8620000\t8630000\t1\t8730000\t8740000\t0.001\n+1\t8480000\t8490000\t1\t8580000\t8590000\t0.001\n+1\t8800000\t8810000\t1\t8900000\t8910000\t0.001\n+1\t8960000\t8970000\t1\t9060000\t9070000\t0.001\n+1\t9010000\t9020000\t1\t9520000\t9530000\t0.001\n+1\t9340000\t9350000\t1\t9510000\t9520000\t0.001\n+1\t9650000\t9660000\t1\t10460000\t10470000\t0.001\n+1\t9680000\t9690000\t1\t9780000\t9790000\t0.001\n+1\t9830000\t9840000\t1\t9930000\t9940000\t0.001\n+1\t10270000\t10280000\t1\t10390000\t10400000\t0.001\n+1\t10560000\t10570000\t1\t11700000\t11710000\t0.001\n+1\t10560000\t10570000\t1\t10920000\t10930000\t0.001\n+1\t10580000\t10590000\t1\t10680000\t10690000\t0.001\n+1\t11090000\t11100000\t1\t11700000\t11710000\t0.001\n+1\t11170000\t11180000\t1\t11270000\t11280000\t0.001\n+1\t11390000\t11400000\t1\t11700000\t11710000\t0.001\n+1\t12170000\t12180000\t1\t12270000\t12280000\t0.001\n+1\t12370000\t12380000\t1\t12670000\t12680000\t0.001\n+1\t12400000\t12410000\t1\t13470000\t13480000\t0.001\n+1\t12600000\t12610000\t1\t13160000\t13170000\t0.001\n+1\t13110000\t13120000\t1\t13630000\t13640000\t0.001\n+1\t13010000\t13020000\t1\t13120000\t13130000\t0.001\n+1\t13030000\t13040000\t1\t13320000\t13330000\t0.001\n+1\t12960000\t12970000\t1\t14300000\t14310000\t0.001\n+1\t13160000\t13170000\t1\t14520000\t14530000\t0.001\n+1\t13320000\t13330000\t1\t13440000\t13450000\t0.001\n+1\t13350000\t13360000\t1\t13630000\t13640000\t0.00899288810192917\n+1\t13500000\t13510000\t1\t13720000\t13730000\t0.001\n+1\t13690000\t13700000\t1\t15390000\t15400000\t0.001\n+1\t13990000\t14000000\t1\t14130000\t14140000\t0.001\n+1\t13990000\t14000000\t1\t14280000\t14290000\t0.001\n+1\t14280000\t14290000\t1\t15370000\t15380000\t0.001\n+1\t14150000\t14160000\t1\t14280000\t14290000\t0.001\n+1\t14420000\t14430000\t1\t15620000\t15630000\t0.001\n+1\t14430000\t14440000\t1\t14890000\t14900000\t0.001\n+1\t14430000\t14440000\t1\t15370000\t15380000\t0.001\n+1\t14940000\t14950000\t1\t15050000\t15060000\t0.001\n+1\t14720000\t14730000\t1\t15'..b'0.001\n+1\t229860000\t229870000\t1\t229970000\t229980000\t0.001\n+1\t230240000\t230250000\t1\t230340000\t230350000\t0.001\n+1\t230770000\t230780000\t1\t231740000\t231750000\t0.033738281836102446\n+1\t231050000\t231060000\t1\t231340000\t231350000\t0.001\n+1\t231060000\t231070000\t1\t231730000\t231740000\t0.001\n+1\t231490000\t231500000\t1\t231720000\t231730000\t0.001\n+1\t231990000\t232000000\t1\t233140000\t233150000\t0.001\n+1\t232000000\t232010000\t1\t232760000\t232770000\t0.001\n+1\t232000000\t232010000\t1\t233370000\t233380000\t0.001\n+1\t232770000\t232780000\t1\t233370000\t233380000\t0.001\n+1\t232770000\t232780000\t1\t233160000\t233170000\t0.001\n+1\t233480000\t233490000\t1\t234460000\t234470000\t0.001\n+1\t233730000\t233740000\t1\t234380000\t234390000\t0.001\n+1\t233530000\t233540000\t1\t234200000\t234210000\t0.001\n+1\t233570000\t233580000\t1\t233920000\t233930000\t0.001\n+1\t233620000\t233630000\t1\t233720000\t233730000\t0.001\n+1\t234340000\t234350000\t1\t234440000\t234450000\t0.001\n+1\t234610000\t234620000\t1\t235580000\t235590000\t0.001\n+1\t234630000\t234640000\t1\t235240000\t235250000\t0.001\n+1\t234630000\t234640000\t1\t235140000\t235150000\t0.001\n+1\t234630000\t234640000\t1\t234730000\t234740000\t0.001\n+1\t234740000\t234750000\t1\t234860000\t234870000\t0.001\n+1\t234860000\t234870000\t1\t234970000\t234980000\t0.001\n+1\t235140000\t235150000\t1\t235240000\t235250000\t0.001\n+1\t235410000\t235420000\t1\t235570000\t235580000\t0.001\n+1\t235670000\t235680000\t1\t235940000\t235950000\t0.001\n+1\t235670000\t235680000\t1\t236130000\t236140000\t0.001\n+1\t236020000\t236030000\t1\t236130000\t236140000\t0.001\n+1\t236270000\t236280000\t1\t236650000\t236660000\t0.001\n+1\t236320000\t236330000\t1\t236440000\t236450000\t0.001\n+1\t236260000\t236270000\t1\t237030000\t237040000\t0.001\n+1\t236770000\t236780000\t1\t237720000\t237730000\t0.001\n+1\t236770000\t236780000\t1\t237540000\t237550000\t0.001\n+1\t236920000\t236930000\t1\t237720000\t237730000\t0.001\n+1\t236910000\t236920000\t1\t237540000\t237550000\t0.001\n+1\t237080000\t237090000\t1\t237730000\t237740000\t0.001\n+1\t238010000\t238020000\t1\t239100000\t239110000\t0.001\n+1\t238400000\t238410000\t1\t240050000\t240060000\t0.001\n+1\t238610000\t238620000\t1\t240070000\t240080000\t0.001\n+1\t239570000\t239580000\t1\t240050000\t240060000\t0.001\n+1\t240890000\t240900000\t1\t241640000\t241650000\t0.001\n+1\t241050000\t241060000\t1\t241650000\t241660000\t0.001\n+1\t241770000\t241780000\t1\t242000000\t242010000\t0.001\n+1\t241690000\t241700000\t1\t241790000\t241800000\t0.001\n+1\t242180000\t242190000\t1\t243200000\t243210000\t0.001\n+1\t242630000\t242640000\t1\t243490000\t243500000\t0.001\n+1\t242630000\t242640000\t1\t243180000\t243190000\t0.001\n+1\t242810000\t242820000\t1\t243490000\t243500000\t0.001\n+1\t243370000\t243380000\t1\t243470000\t243480000\t0.001\n+1\t243220000\t243230000\t1\t244120000\t244130000\t0.001\n+1\t243500000\t243510000\t1\t244430000\t244440000\t0.001\n+1\t243510000\t243520000\t1\t243910000\t243920000\t0.001\n+1\t243870000\t243880000\t1\t244430000\t244440000\t0.001\n+1\t244160000\t244170000\t1\t244270000\t244280000\t0.001\n+1\t244760000\t244770000\t1\t245200000\t245210000\t0.001\n+1\t244760000\t244770000\t1\t244960000\t244970000\t0.001\n+1\t245310000\t245320000\t1\t246160000\t246170000\t0.001\n+1\t245310000\t245320000\t1\t246860000\t246870000\t0.001\n+1\t245310000\t245320000\t1\t246610000\t246620000\t0.001\n+1\t245310000\t245320000\t1\t246440000\t246450000\t0.001\n+1\t245400000\t245410000\t1\t245500000\t245510000\t0.001\n+1\t245680000\t245690000\t1\t246620000\t246630000\t0.001\n+1\t245820000\t245830000\t1\t246600000\t246610000\t0.001\n+1\t246170000\t246180000\t1\t246610000\t246620000\t0.001\n+1\t246050000\t246060000\t1\t246160000\t246170000\t0.001\n+1\t246490000\t246500000\t1\t246590000\t246600000\t0.001\n+1\t246170000\t246180000\t1\t246880000\t246890000\t0.001\n+1\t246660000\t246670000\t1\t246860000\t246870000\t0.001\n+1\t247190000\t247200000\t1\t247300000\t247310000\t0.001\n+1\t247370000\t247380000\t1\t247490000\t247500000\t0.001\n+1\t247550000\t247560000\t1\t247650000\t247660000\t0.001\n+1\t247840000\t247850000\t1\t249100000\t249110000\t0.001\n+1\t248080000\t248090000\t1\t248240000\t248250000\t0.001\n+1\t248090000\t248100000\t1\t249100000\t249110000\t0.001\n+1\t248600000\t248610000\t1\t248810000\t248820000\t0.001\n+1\t248400000\t248410000\t1\t249100000\t249110000\t0.001\n+1\t248560000\t248570000\t1\t249100000\t249110000\t0.001\n+1\t248900000\t248910000\t1\t249070000\t249080000\t0.001\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeLoops/gm12878_25kb.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeLoops/gm12878_25kb.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,402 @@\n+1\t1050000\t1075000\t1\t1175000\t1200000\t0.001\n+1\t2325000\t2350000\t1\t3325000\t3350000\t0.001\n+1\t2125000\t2150000\t1\t2300000\t2325000\t0.001\n+1\t2875000\t2900000\t1\t4350000\t4375000\t0.001\n+1\t3525000\t3550000\t1\t3625000\t3650000\t0.001\n+1\t4775000\t4800000\t1\t4875000\t4900000\t0.001\n+1\t4275000\t4300000\t1\t4375000\t4400000\t0.001\n+1\t5100000\t5125000\t1\t5200000\t5225000\t0.001\n+1\t5675000\t5700000\t1\t5775000\t5800000\t0.001\n+1\t5875000\t5900000\t1\t7200000\t7225000\t0.001\n+1\t6300000\t6325000\t1\t6400000\t6425000\t0.001\n+1\t6850000\t6875000\t1\t6950000\t6975000\t0.001\n+1\t7400000\t7425000\t1\t7500000\t7525000\t0.001\n+1\t7850000\t7875000\t1\t7950000\t7975000\t0.001\n+1\t8075000\t8100000\t1\t8350000\t8375000\t0.001\n+1\t8625000\t8650000\t1\t8725000\t8750000\t0.001\n+1\t9325000\t9350000\t1\t9525000\t9550000\t0.001\n+1\t9825000\t9850000\t1\t9925000\t9950000\t0.001\n+1\t10275000\t10300000\t1\t10375000\t10400000\t0.001\n+1\t12175000\t12200000\t1\t12275000\t12300000\t0.001\n+1\t12350000\t12375000\t1\t12675000\t12700000\t0.001\n+1\t12975000\t13000000\t1\t13375000\t13400000\t0.001\n+1\t13100000\t13125000\t1\t14300000\t14325000\t0.001\n+1\t13550000\t13575000\t1\t14325000\t14350000\t0.001\n+1\t13475000\t13500000\t1\t13700000\t13725000\t0.001\n+1\t13975000\t14000000\t1\t14125000\t14150000\t0.001\n+1\t14425000\t14450000\t1\t15350000\t15375000\t0.001\n+1\t15475000\t15500000\t1\t15575000\t15600000\t0.001\n+1\t16125000\t16150000\t1\t16225000\t16250000\t0.001\n+1\t16975000\t17000000\t1\t17075000\t17100000\t0.001\n+1\t17450000\t17475000\t1\t17550000\t17575000\t0.001\n+1\t17825000\t17850000\t1\t17925000\t17950000\t0.001\n+1\t19800000\t19825000\t1\t19900000\t19925000\t0.001\n+1\t18925000\t18950000\t1\t19125000\t19150000\t0.001\n+1\t19225000\t19250000\t1\t19400000\t19425000\t0.001\n+1\t20225000\t20250000\t1\t20475000\t20500000\t0.001\n+1\t20525000\t20550000\t1\t20800000\t20825000\t0.001\n+1\t21100000\t21125000\t1\t22350000\t22375000\t0.001\n+1\t21575000\t21600000\t1\t21675000\t21700000\t0.0010553575253769208\n+1\t22150000\t22175000\t1\t22250000\t22275000\t0.001\n+1\t22450000\t22475000\t1\t22600000\t22625000\t0.001\n+1\t22725000\t22750000\t1\t22950000\t22975000\t0.001\n+1\t23025000\t23050000\t1\t23200000\t23225000\t0.001\n+1\t23400000\t23425000\t1\t23500000\t23525000\t0.001\n+1\t23850000\t23875000\t1\t23950000\t23975000\t0.001\n+1\t24125000\t24150000\t1\t24225000\t24250000\t0.001\n+1\t24325000\t24350000\t1\t26075000\t26100000\t0.001\n+1\t25000000\t25025000\t1\t25150000\t25175000\t0.001\n+1\t24525000\t24550000\t1\t24700000\t24725000\t0.001\n+1\t25925000\t25950000\t1\t26100000\t26125000\t0.001\n+1\t26575000\t26600000\t1\t26675000\t26700000\t0.001\n+1\t26925000\t26950000\t1\t27100000\t27125000\t0.001\n+1\t27425000\t27450000\t1\t27600000\t27625000\t0.001\n+1\t28825000\t28850000\t1\t28925000\t28950000\t0.001\n+1\t29200000\t29225000\t1\t29350000\t29375000\t0.001\n+1\t29550000\t29575000\t1\t31175000\t31200000\t0.001\n+1\t30425000\t30450000\t1\t30525000\t30550000\t0.001\n+1\t31250000\t31275000\t1\t31375000\t31400000\t0.001\n+1\t31900000\t31925000\t1\t32000000\t32025000\t0.001\n+1\t32675000\t32700000\t1\t32775000\t32800000\t0.001\n+1\t32975000\t33000000\t1\t33075000\t33100000\t0.001\n+1\t33400000\t33425000\t1\t33500000\t33525000\t0.001\n+1\t33825000\t33850000\t1\t33925000\t33950000\t0.001\n+1\t34100000\t34125000\t1\t35200000\t35225000\t0.001\n+1\t34300000\t34325000\t1\t34400000\t34425000\t0.001\n+1\t34925000\t34950000\t1\t35050000\t35075000\t0.001\n+1\t35650000\t35675000\t1\t35750000\t35775000\t0.001\n+1\t36775000\t36800000\t1\t36875000\t36900000\t0.001\n+1\t37325000\t37350000\t1\t37425000\t37450000\t0.001\n+1\t37675000\t37700000\t1\t37775000\t37800000\t0.001\n+1\t38050000\t38075000\t1\t38150000\t38175000\t0.001\n+1\t38325000\t38350000\t1\t38425000\t38450000\t0.001\n+1\t39550000\t39575000\t1\t39650000\t39675000\t0.0012254650005710432\n+1\t40375000\t40400000\t1\t40475000\t40500000\t0.001\n+1\t40600000\t40625000\t1\t40800000\t40825000\t0.001\n+1\t42100000\t42125000\t1\t42200000\t42225000\t0.001\n+1\t41775000\t41800000\t1\t41875000\t41900000\t0.001\n+1\t43025000\t43050000\t1\t43200000\t43225000\t0.001\n+1\t43375000\t43400000\t1\t43525000\t43550000\t0.001\n+1\t43700000\t43725000\t1\t43800000\t43825000\t0.001\n+1\t44225000\t44250000\t1\t44375000\t44400000\t0.001\n+1\t44825000\t44850000\t1\t45050000\t45075000\t0.001\n+1\t45475000\t45500000\t1\t45750000\t45775000\t0.001\n+1\t45800000\t45825000\t1\t45950000\t45975000\t0.001\n+1\t46150000\t46175000\t1\t46250000\t46275000\t0.001\n+1\t46500000\t46525000\t1\t466'..b'.001\n+1\t200575000\t200600000\t1\t200750000\t200775000\t0.001\n+1\t201525000\t201550000\t1\t201650000\t201675000\t0.001\n+1\t202450000\t202475000\t1\t202550000\t202575000\t0.001\n+1\t203000000\t203025000\t1\t203175000\t203200000\t0.001\n+1\t203100000\t203125000\t1\t204800000\t204825000\t0.001\n+1\t203300000\t203325000\t1\t203400000\t203425000\t0.001\n+1\t203825000\t203850000\t1\t204075000\t204100000\t0.001\n+1\t204125000\t204150000\t1\t204325000\t204350000\t0.001\n+1\t205350000\t205375000\t1\t205450000\t205475000\t0.001\n+1\t205875000\t205900000\t1\t206225000\t206250000\t0.001\n+1\t206150000\t206175000\t1\t206600000\t206625000\t0.001\n+1\t206125000\t206150000\t1\t207700000\t207725000\t0.001\n+1\t206650000\t206675000\t1\t206750000\t206775000\t0.001\n+1\t207250000\t207275000\t1\t207650000\t207675000\t0.001\n+1\t209250000\t209275000\t1\t209350000\t209375000\t0.001\n+1\t208050000\t208075000\t1\t208150000\t208175000\t0.001\n+1\t209750000\t209775000\t1\t209850000\t209875000\t0.001\n+1\t210300000\t210325000\t1\t210475000\t210500000\t0.001\n+1\t212000000\t212025000\t1\t212100000\t212125000\t0.001\n+1\t212225000\t212250000\t1\t212525000\t212550000\t0.001\n+1\t214500000\t214525000\t1\t215675000\t215700000\t0.001\n+1\t214975000\t215000000\t1\t215675000\t215700000\t0.001\n+1\t215100000\t215125000\t1\t215200000\t215225000\t0.001\n+1\t216475000\t216500000\t1\t217900000\t217925000\t0.001\n+1\t216475000\t216500000\t1\t218325000\t218350000\t0.001\n+1\t217650000\t217675000\t1\t217775000\t217800000\t0.001\n+1\t218500000\t218525000\t1\t219725000\t219750000\t0.001\n+1\t219250000\t219275000\t1\t219350000\t219375000\t0.001\n+1\t220175000\t220200000\t1\t220275000\t220300000\t0.001\n+1\t221000000\t221025000\t1\t222350000\t222375000\t0.001\n+1\t221225000\t221250000\t1\t221325000\t221350000\t0.001\n+1\t221625000\t221650000\t1\t223250000\t223275000\t0.001\n+1\t222650000\t222675000\t1\t224125000\t224150000\t0.001\n+1\t222950000\t222975000\t1\t223250000\t223275000\t0.001\n+1\t223700000\t223725000\t1\t223800000\t223825000\t0.001\n+1\t224000000\t224025000\t1\t224100000\t224125000\t0.001\n+1\t224300000\t224325000\t1\t224500000\t224525000\t0.001\n+1\t224875000\t224900000\t1\t225025000\t225050000\t0.001\n+1\t226400000\t226425000\t1\t226500000\t226525000\t0.001\n+1\t226700000\t226725000\t1\t228075000\t228100000\t0.001\n+1\t226800000\t226825000\t1\t227000000\t227025000\t0.001\n+1\t227750000\t227775000\t1\t227850000\t227875000\t0.001\n+1\t227825000\t227850000\t1\t228750000\t228775000\t0.001\n+1\t228575000\t228600000\t1\t228675000\t228700000\t0.001\n+1\t228800000\t228825000\t1\t229350000\t229375000\t0.001\n+1\t228750000\t228775000\t1\t230650000\t230675000\t0.001\n+1\t229375000\t229400000\t1\t230425000\t230450000\t0.001\n+1\t229375000\t229400000\t1\t229600000\t229625000\t0.001\n+1\t229775000\t229800000\t1\t230425000\t230450000\t0.001\n+1\t230225000\t230250000\t1\t230325000\t230350000\t0.001\n+1\t231050000\t231075000\t1\t231150000\t231175000\t0.0017961887465136447\n+1\t231475000\t231500000\t1\t231725000\t231750000\t0.001\n+1\t233525000\t233550000\t1\t234200000\t234225000\t0.001\n+1\t232950000\t232975000\t1\t233050000\t233075000\t0.001\n+1\t233550000\t233575000\t1\t233925000\t233950000\t0.001\n+1\t234325000\t234350000\t1\t234425000\t234450000\t0.001\n+1\t235400000\t235425000\t1\t235575000\t235600000\t0.001\n+1\t235675000\t235700000\t1\t235925000\t235950000\t0.001\n+1\t236000000\t236025000\t1\t236100000\t236125000\t0.001\n+1\t236925000\t236950000\t1\t237025000\t237050000\t0.001\n+1\t238000000\t238025000\t1\t239100000\t239125000\t0.001\n+1\t238025000\t238050000\t1\t240025000\t240050000\t0.001\n+1\t238225000\t238250000\t1\t238325000\t238350000\t0.001\n+1\t238400000\t238425000\t1\t240050000\t240075000\t0.001\n+1\t238825000\t238850000\t1\t238925000\t238950000\t0.001\n+1\t241325000\t241350000\t1\t241425000\t241450000\t0.001\n+1\t242175000\t242200000\t1\t243175000\t243200000\t0.001\n+1\t242925000\t242950000\t1\t243025000\t243050000\t0.001\n+1\t243500000\t243525000\t1\t244425000\t244450000\t0.001\n+1\t243350000\t243375000\t1\t243450000\t243475000\t0.001\n+1\t243725000\t243750000\t1\t243825000\t243850000\t0.001\n+1\t245300000\t245325000\t1\t246600000\t246625000\t0.001\n+1\t245300000\t245325000\t1\t246150000\t246175000\t0.001\n+1\t246050000\t246075000\t1\t246150000\t246175000\t0.001\n+1\t246650000\t246675000\t1\t246850000\t246875000\t0.001\n+1\t247200000\t247225000\t1\t247300000\t247325000\t0.001\n+1\t248625000\t248650000\t1\t248725000\t248750000\t0.001\n+1\t248550000\t248575000\t1\t249125000\t249150000\t0.001\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeLoops/gm12878_5kb.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeLoops/gm12878_5kb.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,323 @@\n+1\t80000\t85000\t1\t555000\t560000\t0.001\n+1\t135000\t140000\t1\t660000\t665000\t0.001\n+1\t605000\t610000\t1\t830000\t835000\t0.001\n+1\t2120000\t2125000\t1\t2320000\t2325000\t0.001\n+1\t2345000\t2350000\t1\t2700000\t2705000\t0.001\n+1\t3845000\t3850000\t1\t4110000\t4115000\t0.001\n+1\t6780000\t6785000\t1\t7130000\t7135000\t0.001\n+1\t8085000\t8090000\t1\t8375000\t8380000\t0.001\n+1\t8620000\t8625000\t1\t8900000\t8905000\t0.001\n+1\t9345000\t9350000\t1\t9550000\t9555000\t0.001\n+1\t9935000\t9940000\t1\t10485000\t10490000\t0.001\n+1\t10555000\t10560000\t1\t10925000\t10930000\t0.001\n+1\t10570000\t10575000\t1\t11000000\t11005000\t0.001\n+1\t11095000\t11100000\t1\t11700000\t11705000\t0.001\n+1\t11305000\t11310000\t1\t11700000\t11705000\t0.001\n+1\t11395000\t11400000\t1\t11700000\t11705000\t0.001\n+1\t12370000\t12375000\t1\t12675000\t12680000\t0.001\n+1\t12845000\t12850000\t1\t13450000\t13455000\t0.001\n+1\t12950000\t12955000\t1\t13630000\t13635000\t0.001\n+1\t13035000\t13040000\t1\t13325000\t13330000\t0.001\n+1\t12905000\t12910000\t1\t13180000\t13185000\t0.001\n+1\t13020000\t13025000\t1\t13485000\t13490000\t0.001\n+1\t13130000\t13135000\t1\t13335000\t13340000\t0.001\n+1\t13125000\t13130000\t1\t13505000\t13510000\t0.001\n+1\t13350000\t13355000\t1\t13630000\t13635000\t0.001\n+1\t13335000\t13340000\t1\t13540000\t13545000\t0.001\n+1\t13505000\t13510000\t1\t13725000\t13730000\t0.001\n+1\t16115000\t16120000\t1\t16380000\t16385000\t0.001\n+1\t16115000\t16120000\t1\t16320000\t16325000\t0.001\n+1\t16835000\t16840000\t1\t17065000\t17070000\t0.001\n+1\t16860000\t16865000\t1\t17195000\t17200000\t0.001\n+1\t16950000\t16955000\t1\t17270000\t17275000\t0.001\n+1\t20240000\t20245000\t1\t20475000\t20480000\t0.001\n+1\t20540000\t20545000\t1\t20820000\t20825000\t0.001\n+1\t21020000\t21025000\t1\t21520000\t21525000\t0.001\n+1\t21310000\t21315000\t1\t21520000\t21525000\t0.001\n+1\t22020000\t22025000\t1\t22285000\t22290000\t0.001\n+1\t22460000\t22465000\t1\t22960000\t22965000\t0.001\n+1\t23000000\t23005000\t1\t23255000\t23260000\t0.001\n+1\t23300000\t23305000\t1\t23510000\t23515000\t0.001\n+1\t24520000\t24525000\t1\t24720000\t24725000\t0.001\n+1\t24525000\t24530000\t1\t24960000\t24965000\t0.001\n+1\t25175000\t25180000\t1\t25530000\t25535000\t0.001\n+1\t25170000\t25175000\t1\t25425000\t25430000\t0.001\n+1\t25725000\t25730000\t1\t26130000\t26135000\t0.001\n+1\t25870000\t25875000\t1\t26135000\t26140000\t0.001\n+1\t25935000\t25940000\t1\t26135000\t26140000\t0.001\n+1\t26920000\t26925000\t1\t27120000\t27125000\t0.001\n+1\t27370000\t27375000\t1\t27610000\t27615000\t0.001\n+1\t27715000\t27720000\t1\t27930000\t27935000\t0.001\n+1\t29205000\t29210000\t1\t29525000\t29530000\t0.001\n+1\t33340000\t33345000\t1\t33550000\t33555000\t0.001\n+1\t36030000\t36035000\t1\t36240000\t36245000\t0.001\n+1\t38485000\t38490000\t1\t39300000\t39305000\t0.001\n+1\t39975000\t39980000\t1\t40235000\t40240000\t0.001\n+1\t40545000\t40550000\t1\t40800000\t40805000\t0.001\n+1\t41075000\t41080000\t1\t41310000\t41315000\t0.001\n+1\t42040000\t42045000\t1\t42635000\t42640000\t0.001\n+1\t43240000\t43245000\t1\t43535000\t43540000\t0.001\n+1\t43680000\t43685000\t1\t43880000\t43885000\t0.001\n+1\t43990000\t43995000\t1\t44400000\t44405000\t0.001\n+1\t43995000\t44000000\t1\t44510000\t44515000\t0.001\n+1\t45295000\t45300000\t1\t45765000\t45770000\t0.001\n+1\t45480000\t45485000\t1\t45765000\t45770000\t0.001\n+1\t45475000\t45480000\t1\t45960000\t45965000\t0.001\n+1\t45825000\t45830000\t1\t46035000\t46040000\t0.001\n+1\t47340000\t47345000\t1\t47555000\t47560000\t0.001\n+1\t47895000\t47900000\t1\t48175000\t48180000\t0.001\n+1\t50830000\t50835000\t1\t51165000\t51170000\t0.001\n+1\t51240000\t51245000\t1\t51650000\t51655000\t0.001\n+1\t51335000\t51340000\t1\t51655000\t51660000\t0.001\n+1\t54585000\t54590000\t1\t54955000\t54960000\t0.001\n+1\t59200000\t59205000\t1\t60160000\t60165000\t0.001\n+1\t59240000\t59245000\t1\t59750000\t59755000\t0.001\n+1\t62640000\t62645000\t1\t62870000\t62875000\t0.001\n+1\t62970000\t62975000\t1\t63210000\t63215000\t0.001\n+1\t64085000\t64090000\t1\t64705000\t64710000\t0.001\n+1\t64155000\t64160000\t1\t64600000\t64605000\t0.001\n+1\t65530000\t65535000\t1\t66155000\t66160000\t0.001\n+1\t65700000\t65705000\t1\t66150000\t66155000\t0.001\n+1\t66425000\t66430000\t1\t66910000\t66915000\t0.001\n+1\t66425000\t66430000\t1\t66705000\t66710000\t0.001\n+1\t66710000\t66715000\t1\t66910000\t66915000\t0.001\n+1\t67695000\t67700000\t1\t67965000\t67970000\t0.001\n+1\t68025000\t68030000\t1\t68225000\t68230000\t0.001\n+1\t68590000\t68595000\t1\t68805000\t68810000\t0'..b'5000\t182760000\t0.001\n+1\t182930000\t182935000\t1\t183190000\t183195000\t0.001\n+1\t183625000\t183630000\t1\t183880000\t183885000\t0.001\n+1\t184770000\t184775000\t1\t184970000\t184975000\t0.001\n+1\t185780000\t185785000\t1\t186180000\t186185000\t0.001\n+1\t186450000\t186455000\t1\t186950000\t186955000\t0.001\n+1\t186575000\t186580000\t1\t186955000\t186960000\t0.001\n+1\t192440000\t192445000\t1\t192985000\t192990000\t0.001\n+1\t192775000\t192780000\t1\t192985000\t192990000\t0.001\n+1\t196115000\t196120000\t1\t196625000\t196630000\t0.001\n+1\t197490000\t197495000\t1\t197890000\t197895000\t0.001\n+1\t198055000\t198060000\t1\t198325000\t198330000\t0.001\n+1\t198740000\t198745000\t1\t199210000\t199215000\t0.001\n+1\t198740000\t198745000\t1\t199430000\t199435000\t0.001\n+1\t198905000\t198910000\t1\t199210000\t199215000\t0.001\n+1\t199650000\t199655000\t1\t200470000\t200475000\t0.001\n+1\t200110000\t200115000\t1\t200460000\t200465000\t0.001\n+1\t200250000\t200255000\t1\t200455000\t200460000\t0.001\n+1\t200590000\t200595000\t1\t200800000\t200805000\t0.001\n+1\t201525000\t201530000\t1\t201760000\t201765000\t0.001\n+1\t203470000\t203475000\t1\t203670000\t203675000\t0.001\n+1\t203830000\t203835000\t1\t204095000\t204100000\t0.001\n+1\t204130000\t204135000\t1\t204330000\t204335000\t0.001\n+1\t204535000\t204540000\t1\t204775000\t204780000\t0.001\n+1\t205760000\t205765000\t1\t206230000\t206235000\t0.001\n+1\t205890000\t205895000\t1\t206230000\t206235000\t0.001\n+1\t205895000\t205900000\t1\t206330000\t206335000\t0.001\n+1\t206090000\t206095000\t1\t206535000\t206540000\t0.001\n+1\t206905000\t206910000\t1\t207155000\t207160000\t0.001\n+1\t207255000\t207260000\t1\t207580000\t207585000\t0.001\n+1\t207380000\t207385000\t1\t207705000\t207710000\t0.001\n+1\t210030000\t210035000\t1\t210480000\t210485000\t0.001\n+1\t210580000\t210585000\t1\t211305000\t211310000\t0.001\n+1\t210755000\t210760000\t1\t211305000\t211310000\t0.001\n+1\t211850000\t211855000\t1\t212200000\t212205000\t0.001\n+1\t212240000\t212245000\t1\t212465000\t212470000\t0.001\n+1\t212235000\t212240000\t1\t212625000\t212630000\t0.001\n+1\t212650000\t212655000\t1\t212955000\t212960000\t0.001\n+1\t212835000\t212840000\t1\t213165000\t213170000\t0.001\n+1\t212970000\t212975000\t1\t213170000\t213175000\t0.001\n+1\t221040000\t221045000\t1\t221610000\t221615000\t0.001\n+1\t221045000\t221050000\t1\t221375000\t221380000\t0.001\n+1\t221650000\t221655000\t1\t222340000\t222345000\t0.001\n+1\t224300000\t224305000\t1\t224520000\t224525000\t0.001\n+1\t224700000\t224705000\t1\t225040000\t225045000\t0.001\n+1\t224700000\t224705000\t1\t225110000\t225115000\t0.001\n+1\t224825000\t224830000\t1\t225040000\t225045000\t0.001\n+1\t225660000\t225665000\t1\t226095000\t226100000\t0.001\n+1\t225660000\t225665000\t1\t226160000\t226165000\t0.001\n+1\t225660000\t225665000\t1\t225955000\t225960000\t0.001\n+1\t226815000\t226820000\t1\t227015000\t227020000\t0.001\n+1\t227665000\t227670000\t1\t228140000\t228145000\t0.001\n+1\t228800000\t228805000\t1\t229360000\t229365000\t0.001\n+1\t229390000\t229395000\t1\t229615000\t229620000\t0.001\n+1\t231490000\t231495000\t1\t231725000\t231730000\t0.001\n+1\t232765000\t232770000\t1\t233375000\t233380000\t0.001\n+1\t233530000\t233535000\t1\t234200000\t234205000\t0.001\n+1\t233575000\t233580000\t1\t233925000\t233930000\t0.001\n+1\t234635000\t234640000\t1\t235245000\t235250000\t0.001\n+1\t234630000\t234635000\t1\t235145000\t235150000\t0.001\n+1\t234635000\t234640000\t1\t234975000\t234980000\t0.001\n+1\t234740000\t234745000\t1\t235105000\t235110000\t0.001\n+1\t235015000\t235020000\t1\t235245000\t235250000\t0.001\n+1\t235265000\t235270000\t1\t235575000\t235580000\t0.001\n+1\t235675000\t235680000\t1\t235945000\t235950000\t0.001\n+1\t235675000\t235680000\t1\t236135000\t236140000\t0.001\n+1\t236265000\t236270000\t1\t236650000\t236655000\t0.001\n+1\t241690000\t241695000\t1\t242005000\t242010000\t0.001\n+1\t242635000\t242640000\t1\t243175000\t243180000\t0.001\n+1\t243215000\t243220000\t1\t243485000\t243490000\t0.001\n+1\t243505000\t243510000\t1\t244435000\t244440000\t0.001\n+1\t244765000\t244770000\t1\t244965000\t244970000\t0.001\n+1\t244765000\t244770000\t1\t245205000\t245210000\t0.001\n+1\t244960000\t244965000\t1\t245205000\t245210000\t0.001\n+1\t245315000\t245320000\t1\t246165000\t246170000\t0.001\n+1\t246175000\t246180000\t1\t246610000\t246615000\t0.001\n+1\t246660000\t246665000\t1\t246860000\t246865000\t0.001\n+1\t248565000\t248570000\t1\t249100000\t249105000\t0.001\n+1\t248595000\t248600000\t1\t248820000\t248825000\t0.001\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicMergeLoops/gm12878_all.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeLoops/gm12878_all.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1256 @@\n+1\t10000\t20000\t1\t250000\t260000\t0.001\n+1\t80000\t85000\t1\t555000\t560000\t0.001\n+1\t140000\t150000\t1\t680000\t690000\t0.001\n+1\t540000\t550000\t1\t640000\t650000\t0.001\n+1\t605000\t610000\t1\t830000\t835000\t0.001\n+1\t630000\t640000\t1\t1140000\t1150000\t0.001\n+1\t1050000\t1075000\t1\t1175000\t1200000\t0.001\n+1\t1310000\t1320000\t1\t1410000\t1420000\t0.001\n+1\t1710000\t1720000\t1\t1830000\t1840000\t0.001\n+1\t1870000\t1880000\t1\t3340000\t3350000\t0.0019430592210407\n+1\t2080000\t2090000\t1\t3330000\t3340000\t0.001\n+1\t2110000\t2120000\t1\t2710000\t2720000\t0.001\n+1\t2120000\t2130000\t1\t2480000\t2490000\t0.001\n+1\t2125000\t2150000\t1\t2300000\t2325000\t0.001\n+1\t2130000\t2140000\t1\t3570000\t3580000\t0.001\n+1\t2325000\t2350000\t1\t3325000\t3350000\t0.001\n+1\t2340000\t2350000\t1\t2480000\t2490000\t0.001\n+1\t2345000\t2350000\t1\t2700000\t2705000\t0.001\n+1\t2480000\t2490000\t1\t3570000\t3580000\t0.001\n+1\t2580000\t2590000\t1\t2680000\t2690000\t0.001\n+1\t2590000\t2600000\t1\t3300000\t3310000\t0.001\n+1\t2600000\t2610000\t1\t3170000\t3180000\t0.001\n+1\t2850000\t2860000\t1\t4400000\t4410000\t0.001\n+1\t2850000\t2860000\t1\t4160000\t4170000\t0.001\n+1\t2860000\t2870000\t1\t4770000\t4780000\t0.001\n+1\t2875000\t2900000\t1\t4350000\t4375000\t0.001\n+1\t3070000\t3080000\t1\t4190000\t4200000\t0.001\n+1\t3110000\t3120000\t1\t4480000\t4490000\t0.001\n+1\t3240000\t3250000\t1\t4220000\t4230000\t0.001\n+1\t3290000\t3300000\t1\t4380000\t4390000\t0.001\n+1\t3400000\t3410000\t1\t3530000\t3540000\t0.001\n+1\t3525000\t3550000\t1\t3625000\t3650000\t0.001\n+1\t3820000\t3830000\t1\t5510000\t5520000\t0.001\n+1\t3820000\t3830000\t1\t4880000\t4890000\t0.001\n+1\t3820000\t3830000\t1\t5800000\t5810000\t0.001\n+1\t3830000\t3840000\t1\t4710000\t4720000\t0.001\n+1\t3840000\t3850000\t1\t3990000\t4000000\t0.001\n+1\t3840000\t3850000\t1\t4430000\t4440000\t0.001\n+1\t3845000\t3850000\t1\t4110000\t4115000\t0.001\n+1\t4010000\t4020000\t1\t5790000\t5800000\t0.001\n+1\t4150000\t4160000\t1\t5660000\t5670000\t0.001\n+1\t4190000\t4200000\t1\t5430000\t5440000\t0.001\n+1\t4275000\t4300000\t1\t4375000\t4400000\t0.001\n+1\t4280000\t4290000\t1\t5250000\t5260000\t0.001\n+1\t4710000\t4720000\t1\t4880000\t4890000\t0.001\n+1\t4775000\t4800000\t1\t4875000\t4900000\t0.001\n+1\t5100000\t5125000\t1\t5200000\t5225000\t0.001\n+1\t5570000\t5580000\t1\t5970000\t5980000\t0.001\n+1\t5675000\t5700000\t1\t5775000\t5800000\t0.001\n+1\t5875000\t5900000\t1\t7200000\t7225000\t0.001\n+1\t6300000\t6325000\t1\t6400000\t6425000\t0.001\n+1\t6530000\t6540000\t1\t7270000\t7280000\t0.001\n+1\t6540000\t6550000\t1\t6700000\t6710000\t0.001\n+1\t6770000\t6780000\t1\t7270000\t7280000\t0.001\n+1\t6770000\t6780000\t1\t7700000\t7710000\t0.001\n+1\t6780000\t6790000\t1\t7130000\t7140000\t0.001\n+1\t6850000\t6875000\t1\t6950000\t6975000\t0.001\n+1\t7100000\t7110000\t1\t7700000\t7710000\t0.001\n+1\t7400000\t7425000\t1\t7500000\t7525000\t0.001\n+1\t7450000\t7460000\t1\t7550000\t7560000\t0.001\n+1\t7850000\t7875000\t1\t7950000\t7975000\t0.001\n+1\t8050000\t8060000\t1\t8800000\t8810000\t0.001\n+1\t8075000\t8100000\t1\t8350000\t8375000\t0.001\n+1\t8140000\t8150000\t1\t8240000\t8250000\t0.001\n+1\t8480000\t8490000\t1\t8580000\t8590000\t0.001\n+1\t8620000\t8625000\t1\t8900000\t8905000\t0.001\n+1\t8625000\t8650000\t1\t8725000\t8750000\t0.001\n+1\t8800000\t8810000\t1\t8900000\t8910000\t0.001\n+1\t8960000\t8970000\t1\t9060000\t9070000\t0.001\n+1\t9010000\t9020000\t1\t9520000\t9530000\t0.001\n+1\t9325000\t9350000\t1\t9525000\t9550000\t0.001\n+1\t9650000\t9660000\t1\t10460000\t10470000\t0.001\n+1\t9680000\t9690000\t1\t9780000\t9790000\t0.001\n+1\t9825000\t9850000\t1\t9925000\t9950000\t0.001\n+1\t9935000\t9940000\t1\t10485000\t10490000\t0.001\n+1\t10275000\t10300000\t1\t10375000\t10400000\t0.001\n+1\t10560000\t10570000\t1\t10920000\t10930000\t0.001\n+1\t10560000\t10570000\t1\t11700000\t11710000\t0.001\n+1\t10570000\t10575000\t1\t11000000\t11005000\t0.001\n+1\t10580000\t10590000\t1\t10680000\t10690000\t0.001\n+1\t11090000\t11100000\t1\t11700000\t11710000\t0.001\n+1\t11170000\t11180000\t1\t11270000\t11280000\t0.001\n+1\t11305000\t11310000\t1\t11700000\t11705000\t0.001\n+1\t11390000\t11400000\t1\t11700000\t11710000\t0.001\n+1\t12175000\t12200000\t1\t12275000\t12300000\t0.001\n+1\t12350000\t12375000\t1\t12675000\t12700000\t0.001\n+1\t12400000\t12410000\t1\t13470000\t13480000\t0.001\n+1\t12600000\t12610000\t1\t13160000\t13170000\t0.001\n+1\t12845000\t12850000\t1\t13450000\t13455000\t0.001\n+1\t12905000\t12910000\t1\t13180000\t13185000\t0.001\n+1\t12950000\t12955000\t1\t13630000\t13635000\t0.001\n+1\t12960000\t'..b'0000\t233730000\t0.001\n+1\t233730000\t233740000\t1\t234380000\t234390000\t0.001\n+1\t234325000\t234350000\t1\t234425000\t234450000\t0.001\n+1\t234610000\t234620000\t1\t235580000\t235590000\t0.001\n+1\t234630000\t234640000\t1\t235140000\t235150000\t0.001\n+1\t234630000\t234640000\t1\t234730000\t234740000\t0.001\n+1\t234630000\t234640000\t1\t235240000\t235250000\t0.001\n+1\t234635000\t234640000\t1\t234975000\t234980000\t0.001\n+1\t234740000\t234750000\t1\t234860000\t234870000\t0.001\n+1\t234740000\t234745000\t1\t235105000\t235110000\t0.001\n+1\t234860000\t234870000\t1\t234970000\t234980000\t0.001\n+1\t235015000\t235020000\t1\t235245000\t235250000\t0.001\n+1\t235140000\t235150000\t1\t235240000\t235250000\t0.001\n+1\t235265000\t235270000\t1\t235575000\t235580000\t0.001\n+1\t235400000\t235425000\t1\t235575000\t235600000\t0.001\n+1\t235670000\t235680000\t1\t236130000\t236140000\t0.001\n+1\t235675000\t235700000\t1\t235925000\t235950000\t0.001\n+1\t236000000\t236025000\t1\t236100000\t236125000\t0.001\n+1\t236260000\t236270000\t1\t237030000\t237040000\t0.001\n+1\t236270000\t236280000\t1\t236650000\t236660000\t0.001\n+1\t236320000\t236330000\t1\t236440000\t236450000\t0.001\n+1\t236770000\t236780000\t1\t237540000\t237550000\t0.001\n+1\t236770000\t236780000\t1\t237720000\t237730000\t0.001\n+1\t236910000\t236920000\t1\t237540000\t237550000\t0.001\n+1\t236920000\t236930000\t1\t237720000\t237730000\t0.001\n+1\t236925000\t236950000\t1\t237025000\t237050000\t0.001\n+1\t237080000\t237090000\t1\t237730000\t237740000\t0.001\n+1\t238000000\t238025000\t1\t239100000\t239125000\t0.001\n+1\t238025000\t238050000\t1\t240025000\t240050000\t0.001\n+1\t238225000\t238250000\t1\t238325000\t238350000\t0.001\n+1\t238400000\t238425000\t1\t240050000\t240075000\t0.001\n+1\t238610000\t238620000\t1\t240070000\t240080000\t0.001\n+1\t238825000\t238850000\t1\t238925000\t238950000\t0.001\n+1\t239570000\t239580000\t1\t240050000\t240060000\t0.001\n+1\t240890000\t240900000\t1\t241640000\t241650000\t0.001\n+1\t241050000\t241060000\t1\t241650000\t241660000\t0.001\n+1\t241325000\t241350000\t1\t241425000\t241450000\t0.001\n+1\t241690000\t241695000\t1\t242005000\t242010000\t0.001\n+1\t241690000\t241700000\t1\t241790000\t241800000\t0.001\n+1\t241770000\t241780000\t1\t242000000\t242010000\t0.001\n+1\t242175000\t242200000\t1\t243175000\t243200000\t0.001\n+1\t242630000\t242640000\t1\t243180000\t243190000\t0.001\n+1\t242630000\t242640000\t1\t243490000\t243500000\t0.001\n+1\t242810000\t242820000\t1\t243490000\t243500000\t0.001\n+1\t242925000\t242950000\t1\t243025000\t243050000\t0.001\n+1\t243215000\t243220000\t1\t243485000\t243490000\t0.001\n+1\t243220000\t243230000\t1\t244120000\t244130000\t0.001\n+1\t243350000\t243375000\t1\t243450000\t243475000\t0.001\n+1\t243500000\t243525000\t1\t244425000\t244450000\t0.001\n+1\t243510000\t243520000\t1\t243910000\t243920000\t0.001\n+1\t243725000\t243750000\t1\t243825000\t243850000\t0.001\n+1\t243870000\t243880000\t1\t244430000\t244440000\t0.001\n+1\t244160000\t244170000\t1\t244270000\t244280000\t0.001\n+1\t244760000\t244770000\t1\t244960000\t244970000\t0.001\n+1\t244760000\t244770000\t1\t245200000\t245210000\t0.001\n+1\t244960000\t244965000\t1\t245205000\t245210000\t0.001\n+1\t245300000\t245325000\t1\t246600000\t246625000\t0.001\n+1\t245300000\t245325000\t1\t246150000\t246175000\t0.001\n+1\t245310000\t245320000\t1\t246860000\t246870000\t0.001\n+1\t245310000\t245320000\t1\t246440000\t246450000\t0.001\n+1\t245400000\t245410000\t1\t245500000\t245510000\t0.001\n+1\t245680000\t245690000\t1\t246620000\t246630000\t0.001\n+1\t245820000\t245830000\t1\t246600000\t246610000\t0.001\n+1\t246050000\t246075000\t1\t246150000\t246175000\t0.001\n+1\t246170000\t246180000\t1\t246880000\t246890000\t0.001\n+1\t246170000\t246180000\t1\t246610000\t246620000\t0.001\n+1\t246490000\t246500000\t1\t246590000\t246600000\t0.001\n+1\t246650000\t246675000\t1\t246850000\t246875000\t0.001\n+1\t247200000\t247225000\t1\t247300000\t247325000\t0.001\n+1\t247370000\t247380000\t1\t247490000\t247500000\t0.001\n+1\t247550000\t247560000\t1\t247650000\t247660000\t0.001\n+1\t247840000\t247850000\t1\t249100000\t249110000\t0.001\n+1\t248080000\t248090000\t1\t248240000\t248250000\t0.001\n+1\t248090000\t248100000\t1\t249100000\t249110000\t0.001\n+1\t248400000\t248410000\t1\t249100000\t249110000\t0.001\n+1\t248550000\t248575000\t1\t249125000\t249150000\t0.001\n+1\t248600000\t248610000\t1\t248810000\t248820000\t0.001\n+1\t248625000\t248650000\t1\t248725000\t248750000\t0.001\n+1\t248900000\t248910000\t1\t249070000\t249080000\t0.001\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPCA/pca1_test1.bw |
| b |
| Binary file test-data/hicPCA/pca1_test1.bw has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPCA/pca1_test2.bw |
| b |
| Binary file test-data/hicPCA/pca1_test2.bw has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPCA/pca1_test3.bw |
| b |
| Binary file test-data/hicPCA/pca1_test3.bw has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPCA/pca2_test1.bw |
| b |
| Binary file test-data/hicPCA/pca2_test1.bw has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPCA/pca2_test2.bw |
| b |
| Binary file test-data/hicPCA/pca2_test2.bw has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPCA/pca2_test3.bw |
| b |
| Binary file test-data/hicPCA/pca2_test3.bw has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotAverageRegions/defaults.png |
| b |
| Binary file test-data/hicPlotAverageRegions/defaults.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotAverageRegions/defaults_log.png |
| b |
| Binary file test-data/hicPlotAverageRegions/defaults_log.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotAverageRegions/defaults_log1p.png |
| b |
| Binary file test-data/hicPlotAverageRegions/defaults_log1p.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotAverageRegions/defaults_log_vmin_vmax.png |
| b |
| Binary file test-data/hicPlotAverageRegions/defaults_log_vmin_vmax.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotDistVsCounts_result1.png |
| b |
| Binary file test-data/hicPlotDistVsCounts_result1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotDistVsCounts_result2.png |
| b |
| Binary file test-data/hicPlotDistVsCounts_result2.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotMatrix/plot1.png |
| b |
| Binary file test-data/hicPlotMatrix/plot1.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotMatrix/plot2.pdf |
| b |
| Binary file test-data/hicPlotMatrix/plot2.pdf has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotMatrix/plot3_pca.svg --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicPlotMatrix/plot3_pca.svg Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,990 @@\n+<?xml version="1.0" encoding="utf-8" standalone="no"?>\n+<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN"\n+ "http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd">\n+<!-- Created with matplotlib (https://matplotlib.org/) -->\n+<svg height="540pt" version="1.1" viewBox="0 0 612 540" width="612pt" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">\n+ <metadata>\n+ <rdf:RDF xmlns:cc="http://creativecommons.org/ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">\n+ <cc:Work>\n+ <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>\n+ <dc:date>2021-10-21T12:01:15.926583</dc:date>\n+ <dc:format>image/svg+xml</dc:format>\n+ <dc:creator>\n+ <cc:Agent>\n+ <dc:title>Matplotlib v3.3.2, https://matplotlib.org/</dc:title>\n+ </cc:Agent>\n+ </dc:creator>\n+ </cc:Work>\n+ </rdf:RDF>\n+ </metadata>\n+ <defs>\n+ <style type="text/css">*{stroke-linecap:butt;stroke-linejoin:round;}</style>\n+ </defs>\n+ <g id="figure_1">\n+ <g id="patch_1">\n+ <path d="M 0 540 \n+L 612 540 \n+L 612 0 \n+L 0 0 \n+z\n+" style="fill:#ffffff;"/>\n+ </g>\n+ <g id="axes_1">\n+ <g id="patch_2">\n+ <path d="M 71.4125 444.092224 \n+L 525.2375 444.092224 \n+L 525.2375 36.3125 \n+L 71.4125 36.3125 \n+z\n+" style="fill:#ffffff;"/>\n+ </g>\n+ <image height="410.4" id="imagef9750a749d" transform="scale(1 -1)translate(0 -410.4)" width="453.6" x="72" xlink:href="data:image/png;base64,\n+iVBORw0KGgoAAAANSUhEUgAAAD8AAAA5CAYAAACBBvPCAAABHElEQVR4nO2azRLCIAyEg1d9RHw7H5E7njrjT6kEQxKa/Y4OKtslG9OarkSVgnKx3oAlEB8ViD8LJfNeT0j7oEB8VE4lfi/YWmFHhMBbm1LHvWOLPzpGJtzT8FvZ4m+P4e8S518jUPMrUbJc6cH5qEC8J7Z61mipLPHcDY0I2FqpRktlieduaG+9xgXsBWmvRa+Lv9ahzwsg5jzHjc+1VsPSFOdL9jUAtcCxjwrEa3J02+l1XNUIQdc1Pzs4XYufDWpeEunBZdnBxvuPHRz7qCDtJXD3GKsDkWd1pVZWsHm5UCLH3nuqt3hzftSRFYUTIfDiAvFRgXjuf1bPQjPtV+3dHNDqPGBRYl/irercosRw7Ge53fO5lh0ltPNPhL1dYvY75GkAAAAASUVORK5CYII=" y="-36"/>\n+ <g id="matplotlib.axis_1">\n+ <g id="xtick_1">\n+ <g id="line2d_1">\n+ <defs>\n+ <path d="M 0 0 \n+L 0 -3.5 \n+" id="mb5ef7c54c4" style="stroke:#000000;stroke-width:0.8;"/>\n+ </defs>\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="71.4125" xlink:href="#mb5ef7c54c4" y="36.3125"/>\n+ </g>\n+ </g>\n+ <g id="text_1">\n+ <!-- 3.00 -->\n+ <g transform="translate(60.815178 27.58012)scale(0.0833 -0.0833)">\n+ <defs>\n+ <path d="M 40.578125 39.3125 \n+Q 47.65625 37.796875 51.625 33 \n+Q 55.609375 28.21875 55.609375 21.1875 \n+Q 55.609375 10.40625 48.1875 4.484375 \n+Q 40.765625 -1.421875 27.09375 -1.421875 \n+Q 22.515625 -1.421875 17.65625 -0.515625 \n+Q 12.796875 0.390625 7.625 2.203125 \n+L 7.625 11.71875 \n+Q 11.71875 9.328125 16.59375 8.109375 \n+Q 21.484375 6.890625 26.8125 6.890625 \n+Q 36.078125 6.890625 40.9375 10.546875 \n+Q 45.796875 14.203125 45.796875 21.1875 \n+Q 45.796875 27.640625 41.28125 31.265625 \n+Q 36.765625 34.90625 28.71875 34.90625 \n+L 20.21875 34.90625 \n+L 20.21875 43.015625 \n+L 29.109375 43.015625 \n+Q 36.375 43.015625 40.234375 45.921875 \n+Q 44.09375 48.828125 44.09375 54.296875 \n+Q 44.09375 59.90625 40.109375 62.90625 \n+Q 36.140625 65.921875 28.71875 65.921875 \n+Q 24.65625 65.921875 20.015625 65.03125 \n+Q 15.375 64.15625 9.8125 62.3125 \n+L 9.8125 71.09375 \n+Q 15.4375 72.65625 20.34375 73.4375 \n+Q 25.25 74.21875 29.59375 74.21875 \n+Q 40.828125 74.21875 47.359375 69.109375 \n+Q 53.90625 64.015625 53.90625 55.328125 \n+Q 53.90625 49.265625 50.4375 45.09375 \n+Q 46.96875 40.921875 40.578125 39.3125 \n+z\n+" id="DejaVuSans-51"/>\n+ <path d="M 10.6875 12.40625 \n+L 21 12.40625 \n+L 21 0 \n+L 10.6875 0 \n+z\n+" id="DejaVuSans-46"/>\n+ <path d="M 31.78125 66.40625 \n+Q 24.171875 66.40625 20.328125 58.90625 \n+Q 16.5 51.421875 16.5 36.375 \n+Q 16.5 21.390625 20.328125 13.890625 \n+Q 24.171875 6.390625 31.78125 6.390625 \n+Q 39.453125 6.390625 43.28125 13.890625 \n+Q 47.125 21.390625 47.125 36.375 \n+Q 47.125 51.421875 43.28125 58.90625 \n+Q 39.453125 66.40625 31'..b'<path clip-path="url(#pfb06fea9d9)" d="M 305.201136 461.675676 \n+L 305.201136 525.344717 \n+L 309.785227 525.344717 \n+L 314.369318 525.344717 \n+L 318.953409 525.344717 \n+L 323.5375 525.344717 \n+L 328.121591 525.344717 \n+L 332.705682 525.344717 \n+L 337.289773 525.344717 \n+L 341.873864 525.344717 \n+L 341.873864 461.675676 \n+L 341.873864 461.675676 \n+L 337.289773 461.675676 \n+L 332.705682 461.675676 \n+L 328.121591 461.675676 \n+L 323.5375 461.675676 \n+L 318.953409 461.675676 \n+L 314.369318 461.675676 \n+L 309.785227 461.675676 \n+L 305.201136 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 351.042045 461.675676 \n+L 351.042045 525.344717 \n+L 355.626136 525.344717 \n+L 360.210227 525.344717 \n+L 364.794318 525.344717 \n+L 369.378409 525.344717 \n+L 369.378409 461.675676 \n+L 369.378409 461.675676 \n+L 364.794318 461.675676 \n+L 360.210227 461.675676 \n+L 355.626136 461.675676 \n+L 351.042045 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 396.882955 461.675676 \n+L 396.882955 525.344717 \n+L 401.467045 525.344717 \n+L 401.467045 461.675676 \n+L 401.467045 461.675676 \n+L 396.882955 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 410.635227 461.675676 \n+L 410.635227 525.344717 \n+L 415.219318 525.344717 \n+L 419.803409 525.344717 \n+L 424.3875 525.344717 \n+L 428.971591 525.344717 \n+L 433.555682 525.344717 \n+L 433.555682 461.675676 \n+L 433.555682 461.675676 \n+L 428.971591 461.675676 \n+L 424.3875 461.675676 \n+L 419.803409 461.675676 \n+L 415.219318 461.675676 \n+L 410.635227 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 442.723864 461.675676 \n+L 442.723864 525.344717 \n+L 447.307955 525.344717 \n+L 447.307955 461.675676 \n+L 447.307955 461.675676 \n+L 442.723864 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 479.396591 461.675676 \n+L 479.396591 525.344717 \n+L 483.980682 525.344717 \n+L 488.564773 525.344717 \n+L 488.564773 461.675676 \n+L 488.564773 461.675676 \n+L 483.980682 461.675676 \n+L 479.396591 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 497.732955 461.675676 \n+L 497.732955 525.344717 \n+L 497.732955 461.675676 \n+L 497.732955 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ <path clip-path="url(#pfb06fea9d9)" d="M 525.2375 461.675676 \n+L 525.2375 525.344717 \n+L 525.2375 461.675676 \n+L 525.2375 461.675676 \n+z\n+" style="fill:#1f77b4;"/>\n+ </g>\n+ <g id="matplotlib.axis_5">\n+ <g id="ytick_15">\n+ <g id="line2d_20">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="71.4125" xlink:href="#m007817c1d4" y="525.344717"/>\n+ </g>\n+ </g>\n+ <g id="text_22">\n+ <!-- 0 -->\n+ <g transform="translate(58.05 529.143936)scale(0.1 -0.1)">\n+ <use xlink:href="#DejaVuSans-48"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_16">\n+ <g id="line2d_21">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="71.4125" xlink:href="#m007817c1d4" y="493.510197"/>\n+ </g>\n+ </g>\n+ <g id="text_23">\n+ <!-- 5 -->\n+ <g transform="translate(58.05 497.309415)scale(0.1 -0.1)">\n+ <use xlink:href="#DejaVuSans-53"/>\n+ </g>\n+ </g>\n+ </g>\n+ <g id="ytick_17">\n+ <g id="line2d_22">\n+ <g>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="71.4125" xlink:href="#m007817c1d4" y="461.675676"/>\n+ </g>\n+ </g>\n+ <g id="text_24">\n+ <!-- 10 -->\n+ <g transform="translate(51.6875 465.474895)scale(0.1 -0.1)">\n+ <use xlink:href="#DejaVuSans-49"/>\n+ <use x="63.623047" xlink:href="#DejaVuSans-48"/>\n+ </g>\n+ </g>\n+ </g>\n+ </g>\n+ </g>\n+ </g>\n+ <defs>\n+ <clipPath id="p1d24998020">\n+ <rect height="407.779724" width="35.6625" x="536.0375" y="36.3125"/>\n+ </clipPath>\n+ <clipPath id="pfb06fea9d9">\n+ <rect height="70.035945" width="453.825" x="71.4125" y="458.492224"/>\n+ </clipPath>\n+ </defs>\n+</svg>\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotSVL/p_values.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicPlotSVL/p_values.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,4 @@ +# Created with HiCExplorer's hicPlotSVL 3.7.2 +# Short range vs long range contacts per chromosome, p-values of each distribution against each other distribution with Wilcoxon rank-sum +# Short range contacts: <= 2000000 +0_small_test_matrix.h5 1_small_test_matrix.h5 1.0 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotSVL/plot.png |
| b |
| Binary file test-data/hicPlotSVL/plot.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicPlotSVL/ratios.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicPlotSVL/ratios.txt Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,8 @@ +# Created with HiCExplorer's hicPlotSVL 3.7.2 +# Short range vs long range contacts per chromosome: raw data +# Short range contacts: <= 2000000 +# 0_small_test_matrix.h5 1_small_test_matrix.h5 +# Chromosome Ratio Sum <= 2000000 Sum > 2000000 Ratio Sum <= 2000000 Sum > 2000000 +chr2L 4.7639676113360325 11767 2470 4.7639676113360325 11767 2470 +chr3L 4.8960869565217395 11261 2300 4.8960869565217395 11261 2300 +chr4 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicQuickQC/QC.log --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicQuickQC/QC.log Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,29 @@ + +File /var/folders/nm/9sgmbhhj6gn_h8b308xvhm0w0000gt/T/tmp8sucpx99.h5 +Sequenced reads 983 +Min rest. site distance 300 +Max library insert size 1000 + +# count (percentage w.r.t. total sequenced reads) +Pairs mappable, unique and high quality 300 (30.52) +Hi-C contacts 215 (21.87) +One mate unmapped 506 (51.48) +One mate not unique 13 (1.32) +Low mapping quality 164 (16.68) + +# count (percentage w.r.t. mappable, unique and high quality pairs) +dangling end GATC (restriction sequence GATC) 1 (0.33) +self ligation (removed) 0 (0.00) +One mate not close to rest site 0 (0.00) +same fragment 84 (28.00) +self circle 33 (11.00) +duplicated pairs 0 (0.00) + +# count (percentage w.r.t. total valid pairs used) +inter chromosomal 24 (11.16) +Intra short range (< 20kb) 61 (28.37) +Intra long range (>= 20kb) 130 (60.47) +Read pair type: inward pairs 42 (19.53) +Read pair type: outward pairs 66 (30.70) +Read pair type: left pairs 48 (22.33) +Read pair type: right pairs 35 (16.28) |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicTADClassifier/unittest_classifier.BIN |
| b |
| Binary file test-data/hicTADClassifier/unittest_classifier.BIN has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicTrainTADClassifier/multiFDR_dekker_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicTrainTADClassifier/multiFDR_dekker_domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,26 @@ +chr2L 800001 1550001 ID_0.01_1 0.022884658057 . 800001 1550001 31,120,180 +chr2L 1550001 2100001 ID_0.01_2 -0.744086372037 . 1550001 2100001 51,160,44 +chr2L 2100001 2400001 ID_0.01_3 0.311391232701 . 2100001 2400001 31,120,180 +chr2L 2400001 2750001 ID_0.01_4 0.078149036231 . 2400001 2750001 51,160,44 +chr2L 2750001 3700001 ID_0.01_5 -0.648971714281 . 2750001 3700001 31,120,180 +chr2L 3700001 4200001 ID_0.01_6 -0.133385571846 . 3700001 4200001 51,160,44 +chr2L 4200001 5050001 ID_0.01_7 -0.598347187435 . 4200001 5050001 31,120,180 +chr2L 5050001 5450001 ID_0.01_8 -0.589296128895 . 5050001 5450001 51,160,44 +chr2L 5450001 6550001 ID_0.01_9 -0.463215188679 . 5450001 6550001 31,120,180 +chr2L 6550001 7250001 ID_0.01_10 -0.739312227247 . 6550001 7250001 51,160,44 +chr2L 7250001 7650001 ID_0.01_11 -0.558267533146 . 7250001 7650001 31,120,180 +chr2L 7650001 8100001 ID_0.01_12 -0.164474310036 . 7650001 8100001 51,160,44 +chr2L 8100001 8950001 ID_0.01_13 -0.618832592666 . 8100001 8950001 31,120,180 +chr2L 8950001 10450001 ID_0.01_14 -0.547147684409 . 8950001 10450001 51,160,44 +chr2L 10450001 10800001 ID_0.01_15 -0.938748995456 . 10450001 10800001 31,120,180 +chr2L 10800001 11600001 ID_0.01_16 -0.305174734420 . 10800001 11600001 51,160,44 +chr2L 11600001 12300001 ID_0.01_17 -0.941807294590 . 11600001 12300001 31,120,180 +chr2L 12300001 12650001 ID_0.01_18 -0.124089226194 . 12300001 12650001 51,160,44 +chr2L 12650001 13150001 ID_0.01_19 -0.535969778416 . 12650001 13150001 31,120,180 +chr2L 13150001 13800001 ID_0.01_20 -0.246694822549 . 13150001 13800001 51,160,44 +chr2L 13800001 14200001 ID_0.01_21 -0.220174816848 . 13800001 14200001 31,120,180 +chr2L 14200001 15650001 ID_0.01_22 -0.512329343230 . 14200001 15650001 51,160,44 +chr2L 15650001 16250001 ID_0.01_23 -0.711741883911 . 15650001 16250001 31,120,180 +chr2L 16250001 17550001 ID_0.01_24 -0.917923384534 . 16250001 17550001 51,160,44 +chr2L 17550001 17850001 ID_0.01_25 -0.423222465610 . 17550001 17850001 31,120,180 +chr2L 17850001 18550001 ID_0.01_26 -0.274143371604 . 17850001 18550001 51,160,44 \ No newline at end of file |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicTrainTADClassifier/small_test_matrix.cool |
| b |
| Binary file test-data/hicTrainTADClassifier/small_test_matrix.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicTransform/obs_exp_norm.h5 |
| b |
| Binary file test-data/hicTransform/obs_exp_norm.h5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicValidateLocations/GSM935376_hg19_Gm12878_Smc3.narrowPeak --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicValidateLocations/GSM935376_hg19_Gm12878_Smc3.narrowPeak Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,5903 @@\n+chr1\t237570\t237942\tregion_12575\t0\t+\n+chr1\t521398\t521603\tregion_25163\t0\t+\n+chr1\t569733\t570121\tregion_46504\t0\t+\n+chr1\t713987\t714365\tregion_26941\t0\t+\n+chr1\t793341\t793542\tregion_27446\t0\t+\n+chr1\t805168\t805444\tregion_19499\t0\t+\n+chr1\t839991\t840329\tregion_22280\t0\t+\n+chr1\t856451\t856737\tregion_30261\t0\t+\n+chr1\t873533\t873837\tregion_17595\t0\t+\n+chr1\t886876\t886983\tregion_38607\t0\t+\n+chr1\t894384\t894749\tregion_40963\t0\t+\n+chr1\t902196\t902278\tregion_44335\t0\t+\n+chr1\t911452\t911761\tregion_22213\t0\t+\n+chr1\t919428\t919915\tregion_8832\t0\t+\n+chr1\t937221\t937593\tregion_24230\t0\t+\n+chr1\t950754\t951010\tregion_41625\t0\t+\n+chr1\t954667\t954954\tregion_38802\t0\t+\n+chr1\t966672\t966902\tregion_32413\t0\t+\n+chr1\t967907\t968787\tregion_6526\t0\t+\n+chr1\t974207\t974385\tregion_54361\t0\t+\n+chr1\t986145\t986296\tregion_39601\t0\t+\n+chr1\t995276\t995316\tregion_40603\t0\t+\n+chr1\t998959\t999690\tregion_4557\t0\t+\n+chr1\t1057373\t1058080\tregion_1150\t0\t+\n+chr1\t1107295\t1107492\tregion_56364\t0\t+\n+chr1\t1136912\t1137112\tregion_32099\t0\t+\n+chr1\t1142067\t1142321\tregion_47363\t0\t+\n+chr1\t1150565\t1150702\tregion_48790\t0\t+\n+chr1\t1166119\t1167029\tregion_20466\t0\t+\n+chr1\t1185813\t1185948\tregion_46195\t0\t+\n+chr1\t1209638\t1209733\tregion_46943\t0\t+\n+chr1\t1225554\t1225897\tregion_15808\t0\t+\n+chr1\t1227202\t1227595\tregion_9258\t0\t+\n+chr1\t1235596\t1235647\tregion_63971\t0\t+\n+chr1\t1237388\t1237537\tregion_46196\t0\t+\n+chr1\t1240639\t1240973\tregion_25237\t0\t+\n+chr1\t1241553\t1241762\tregion_49888\t0\t+\n+chr1\t1280026\t1280363\tregion_23642\t0\t+\n+chr1\t1285132\t1285399\tregion_37107\t0\t+\n+chr1\t1307416\t1307838\tregion_9704\t0\t+\n+chr1\t1337352\t1337707\tregion_31138\t0\t+\n+chr1\t1342404\t1343433\tregion_33544\t0\t+\n+chr1\t1353536\t1353613\tregion_63972\t0\t+\n+chr1\t1357843\t1357908\tregion_42858\t0\t+\n+chr1\t1373108\t1373115\tregion_51599\t0\t+\n+chr1\t1373360\t1373684\tregion_59786\t0\t+\n+chr1\t1376267\t1376650\tregion_8613\t0\t+\n+chr1\t1377059\t1377207\tregion_60172\t0\t+\n+chr1\t1440290\t1440574\tregion_54889\t0\t+\n+chr1\t1440903\t1441103\tregion_54362\t0\t+\n+chr1\t1533139\t1533314\tregion_36733\t0\t+\n+chr1\t1550435\t1551064\tregion_24937\t0\t+\n+chr1\t1603367\t1603368\tregion_51600\t0\t+\n+chr1\t1609148\t1609971\tregion_19006\t0\t+\n+chr1\t1610356\t1610731\tregion_23382\t0\t+\n+chr1\t1655649\t1655942\tregion_64571\t0\t+\n+chr1\t1695880\t1695931\tregion_63973\t0\t+\n+chr1\t1706905\t1707425\tregion_43220\t0\t+\n+chr1\t1710284\t1710876\tregion_52504\t0\t+\n+chr1\t1711690\t1712378\tregion_22288\t0\t+\n+chr1\t1720502\t1720834\tregion_24938\t0\t+\n+chr1\t1727941\t1728197\tregion_41626\t0\t+\n+chr1\t1731197\t1731492\tregion_34098\t0\t+\n+chr1\t1747185\t1747294\tregion_54999\t0\t+\n+chr1\t1759923\t1760320\tregion_51944\t0\t+\n+chr1\t1780635\t1780740\tregion_61000\t0\t+\n+chr1\t1787180\t1787358\tregion_60173\t0\t+\n+chr1\t1788773\t1788946\tregion_62664\t0\t+\n+chr1\t1796255\t1796272\tregion_51601\t0\t+\n+chr1\t1800896\t1801096\tregion_54363\t0\t+\n+chr1\t1821511\t1821701\tregion_62665\t0\t+\n+chr1\t1823085\t1823298\tregion_36628\t0\t+\n+chr1\t1830698\t1830975\tregion_30262\t0\t+\n+chr1\t1837622\t1838087\tregion_3552\t0\t+\n+chr1\t1840194\t1840670\tregion_21907\t0\t+\n+chr1\t1875462\t1875751\tregion_29889\t0\t+\n+chr1\t1891507\t1891815\tregion_20679\t0\t+\n+chr1\t1976270\t1976560\tregion_44421\t0\t+\n+chr1\t1977929\t1978246\tregion_31789\t0\t+\n+chr1\t2023099\t2023367\tregion_31689\t0\t+\n+chr1\t2052851\t2053379\tregion_25905\t0\t+\n+chr1\t2064623\t2064648\tregion_51602\t0\t+\n+chr1\t2071213\t2071698\tregion_19333\t0\t+\n+chr1\t2105723\t2106103\tregion_12038\t0\t+\n+chr1\t2126534\t2127060\tregion_3195\t0\t+\n+chr1\t2136854\t2137024\tregion_48791\t0\t+\n+chr1\t2144140\t2144455\tregion_28434\t0\t+\n+chr1\t2158823\t2158983\tregion_48792\t0\t+\n+chr1\t2160620\t2160932\tregion_31563\t0\t+\n+chr1\t2165794\t2166091\tregion_37039\t0\t+\n+chr1\t2186945\t2186985\tregion_51603\t0\t+\n+chr1\t2221916\t2222834\tregion_53663\t0\t+\n+chr1\t2231770\t2232780\tregion_29107\t0\t+\n+chr1\t2243029\t2243249\tregion_37978\t0\t+\n+chr1\t2246712\t2246943\tregion_28716\t0\t+\n+chr1\t2313032\t2313595\tregion_2106\t0\t+\n+chr1\t2314096\t2314296\tregion_37587\t0\t+\n+chr1\t2322725\t2322950\tregion_59691\t0\t+\n+chr1\t2343703\t2343772\tregion_51604\t0\t+\n+chr1\t2344272\t2344443\tregion_50817\t0\t+\n+chr1\t2345786\t2346255\tregion_2257\t0\t+\n+chr1\t2347202\t2347415\tregion_35494\t0\t+\n+chr1\t2361572\t2361772\tregion_58664\t0\t+\n+chr1\t2375388\t237555'..b'4\tregion_31355\t0\t+\n+chr1\t244766729\t244767134\tregion_14942\t0\t+\n+chr1\t244816629\t244816843\tregion_43739\t0\t+\n+chr1\t244960077\t244960670\tregion_3667\t0\t+\n+chr1\t244964442\t244964883\tregion_4000\t0\t+\n+chr1\t244977926\t244978123\tregion_62161\t0\t+\n+chr1\t244998664\t244998871\tregion_45776\t0\t+\n+chr1\t244999700\t244999749\tregion_64060\t0\t+\n+chr1\t245027598\t245028412\tregion_45678\t0\t+\n+chr1\t245082167\t245082439\tregion_32500\t0\t+\n+chr1\t245089144\t245089214\tregion_61069\t0\t+\n+chr1\t245104430\t245104711\tregion_54830\t0\t+\n+chr1\t245132833\t245133399\tregion_50061\t0\t+\n+chr1\t245133982\t245134853\tregion_36772\t0\t+\n+chr1\t245205811\t245206410\tregion_2491\t0\t+\n+chr1\t245242370\t245242694\tregion_44150\t0\t+\n+chr1\t245316247\t245316689\tregion_12572\t0\t+\n+chr1\t245319751\t245320102\tregion_9366\t0\t+\n+chr1\t245440732\t245440821\tregion_44353\t0\t+\n+chr1\t245544137\t245544435\tregion_25207\t0\t+\n+chr1\t245812331\t245812832\tregion_26685\t0\t+\n+chr1\t245836924\t245836965\tregion_64061\t0\t+\n+chr1\t245961057\t245961257\tregion_35514\t0\t+\n+chr1\t245970420\t245970527\tregion_55859\t0\t+\n+chr1\t246022365\t246022648\tregion_29024\t0\t+\n+chr1\t246052061\t246052491\tregion_7741\t0\t+\n+chr1\t246058193\t246058476\tregion_41032\t0\t+\n+chr1\t246132825\t246132850\tregion_42910\t0\t+\n+chr1\t246163046\t246163396\tregion_41673\t0\t+\n+chr1\t246166202\t246166839\tregion_940\t0\t+\n+chr1\t246175298\t246176192\tregion_6252\t0\t+\n+chr1\t246183508\t246183683\tregion_43947\t0\t+\n+chr1\t246280470\t246280911\tregion_49424\t0\t+\n+chr1\t246411660\t246411787\tregion_47485\t0\t+\n+chr1\t246443894\t246444226\tregion_50380\t0\t+\n+chr1\t246493106\t246493746\tregion_59251\t0\t+\n+chr1\t246558661\t246558668\tregion_48341\t0\t+\n+chr1\t246613874\t246614432\tregion_9016\t0\t+\n+chr1\t246655959\t246656299\tregion_16594\t0\t+\n+chr1\t246660508\t246661194\tregion_5420\t0\t+\n+chr1\t246670422\t246670483\tregion_61070\t0\t+\n+chr1\t246695979\t246696047\tregion_55860\t0\t+\n+chr1\t246729300\t246730422\tregion_25377\t0\t+\n+chr1\t246730707\t246730763\tregion_58278\t0\t+\n+chr1\t246732917\t246732950\tregion_42911\t0\t+\n+chr1\t246736975\t246736977\tregion_48342\t0\t+\n+chr1\t246754892\t246755092\tregion_59714\t0\t+\n+chr1\t246764750\t246764802\tregion_40640\t0\t+\n+chr1\t246776613\t246776667\tregion_42912\t0\t+\n+chr1\t246852800\t246853214\tregion_6202\t0\t+\n+chr1\t246859805\t246860134\tregion_25491\t0\t+\n+chr1\t246861934\t246861938\tregion_48343\t0\t+\n+chr1\t246862419\t246862876\tregion_8305\t0\t+\n+chr1\t246917141\t246917603\tregion_7126\t0\t+\n+chr1\t246972894\t246972990\tregion_53526\t0\t+\n+chr1\t247070840\t247071139\tregion_28439\t0\t+\n+chr1\t247123397\t247123696\tregion_28646\t0\t+\n+chr1\t247134651\t247135021\tregion_10077\t0\t+\n+chr1\t247240590\t247240817\tregion_41639\t0\t+\n+chr1\t247282285\t247282547\tregion_23774\t0\t+\n+chr1\t247373607\t247373677\tregion_55861\t0\t+\n+chr1\t247375366\t247375713\tregion_46666\t0\t+\n+chr1\t247494433\t247494633\tregion_49920\t0\t+\n+chr1\t247495777\t247495849\tregion_58279\t0\t+\n+chr1\t247496586\t247496645\tregion_61071\t0\t+\n+chr1\t247536009\t247536390\tregion_6529\t0\t+\n+chr1\t247537197\t247537559\tregion_19742\t0\t+\n+chr1\t247549666\t247549825\tregion_56398\t0\t+\n+chr1\t247553255\t247554052\tregion_5344\t0\t+\n+chr1\t247570450\t247570888\tregion_55239\t0\t+\n+chr1\t247573185\t247573749\tregion_37144\t0\t+\n+chr1\t247603341\t247603923\tregion_27793\t0\t+\n+chr1\t247650185\t247650794\tregion_6978\t0\t+\n+chr1\t247739860\t247740190\tregion_26084\t0\t+\n+chr1\t247844637\t247844986\tregion_43198\t0\t+\n+chr1\t248100167\t248100642\tregion_3825\t0\t+\n+chr1\t248406422\t248407032\tregion_6185\t0\t+\n+chr1\t248567324\t248567772\tregion_21120\t0\t+\n+chr1\t248595731\t248595786\tregion_54123\t0\t+\n+chr1\t248596049\t248596213\tregion_50862\t0\t+\n+chr1\t248598404\t248598485\tregion_51656\t0\t+\n+chr1\t248602309\t248602362\tregion_51657\t0\t+\n+chr1\t248602932\t248602948\tregion_51658\t0\t+\n+chr1\t248609314\t248609317\tregion_54124\t0\t+\n+chr1\t248613753\t248613809\tregion_51659\t0\t+\n+chr1\t248624246\t248624516\tregion_31214\t0\t+\n+chr1\t248630072\t248630123\tregion_61072\t0\t+\n+chr1\t248644915\t248645001\tregion_42913\t0\t+\n+chr1\t248645583\t248645930\tregion_37430\t0\t+\n+chr1\t248848783\t248848866\tregion_61073\t0\t+\n+chr1\t248849610\t248850639\tregion_5597\t0\t+\n+chr1\t248851498\t248852591\tregion_23251\t0\t+\n+chr1\t248859535\t248859989\tregion_10778\t0\t+\n+chr1\t248866958\t248867370\tregion_34602\t0\t+\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicValidateLocations/loops_1.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicValidateLocations/loops_1.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1007 @@\n+1\t10000\t20000\t1\t250000\t260000\t0.001\n+1\t10000\t20000\t1\t243180000\t243190000\t0.001\n+1\t140000\t150000\t1\t680000\t690000\t0.001\n+1\t540000\t550000\t1\t640000\t650000\t0.001\n+1\t720000\t730000\t1\t224200000\t224210000\t0.001\n+1\t630000\t640000\t1\t1140000\t1150000\t0.001\n+1\t650000\t660000\t1\t145910000\t145920000\t0.001\n+1\t1050000\t1060000\t1\t1180000\t1190000\t0.001\n+1\t1310000\t1320000\t1\t1410000\t1420000\t0.001\n+1\t1710000\t1720000\t1\t1830000\t1840000\t0.001\n+1\t1870000\t1880000\t1\t3340000\t3350000\t0.0019430592210407135\n+1\t2110000\t2120000\t1\t2710000\t2720000\t0.001\n+1\t2130000\t2140000\t1\t3570000\t3580000\t0.001\n+1\t2080000\t2090000\t1\t3330000\t3340000\t0.001\n+1\t2120000\t2130000\t1\t2310000\t2320000\t0.001\n+1\t2120000\t2130000\t1\t2480000\t2490000\t0.001\n+1\t2480000\t2490000\t1\t3570000\t3580000\t0.001\n+1\t2340000\t2350000\t1\t3340000\t3350000\t0.001\n+1\t2340000\t2350000\t1\t2480000\t2490000\t0.001\n+1\t2590000\t2600000\t1\t3300000\t3310000\t0.001\n+1\t2580000\t2590000\t1\t2680000\t2690000\t0.001\n+1\t2600000\t2610000\t1\t3170000\t3180000\t0.001\n+1\t2850000\t2860000\t1\t4400000\t4410000\t0.001\n+1\t2860000\t2870000\t1\t4770000\t4780000\t0.001\n+1\t2850000\t2860000\t1\t4160000\t4170000\t0.001\n+1\t2860000\t2870000\t1\t5220000\t5230000\t0.001\n+1\t3070000\t3080000\t1\t4190000\t4200000\t0.001\n+1\t3110000\t3120000\t1\t4480000\t4490000\t0.001\n+1\t3240000\t3250000\t1\t4220000\t4230000\t0.001\n+1\t3290000\t3300000\t1\t4380000\t4390000\t0.001\n+1\t3400000\t3410000\t1\t3530000\t3540000\t0.001\n+1\t3820000\t3830000\t1\t5960000\t5970000\t0.001\n+1\t3820000\t3830000\t1\t5510000\t5520000\t0.001\n+1\t3820000\t3830000\t1\t5800000\t5810000\t0.001\n+1\t3820000\t3830000\t1\t4880000\t4890000\t0.001\n+1\t3840000\t3850000\t1\t4430000\t4440000\t0.001\n+1\t3830000\t3840000\t1\t4710000\t4720000\t0.001\n+1\t3840000\t3850000\t1\t3990000\t4000000\t0.001\n+1\t4190000\t4200000\t1\t5430000\t5440000\t0.001\n+1\t4010000\t4020000\t1\t5790000\t5800000\t0.001\n+1\t4150000\t4160000\t1\t5660000\t5670000\t0.001\n+1\t4710000\t4720000\t1\t4880000\t4890000\t0.001\n+1\t4280000\t4290000\t1\t5250000\t5260000\t0.001\n+1\t5570000\t5580000\t1\t5970000\t5980000\t0.001\n+1\t6770000\t6780000\t1\t7700000\t7710000\t0.001\n+1\t6510000\t6520000\t1\t17020000\t17030000\t0.001\n+1\t6540000\t6550000\t1\t6700000\t6710000\t0.001\n+1\t6780000\t6790000\t1\t7130000\t7140000\t0.001\n+1\t6770000\t6780000\t1\t7270000\t7280000\t0.001\n+1\t6850000\t6860000\t1\t6950000\t6960000\t0.001\n+1\t7100000\t7110000\t1\t7700000\t7710000\t0.001\n+1\t7450000\t7460000\t1\t7550000\t7560000\t0.001\n+1\t8080000\t8090000\t1\t8370000\t8380000\t0.001\n+1\t8050000\t8060000\t1\t8800000\t8810000\t0.001\n+1\t8620000\t8630000\t1\t8730000\t8740000\t0.001\n+1\t8960000\t8970000\t1\t9060000\t9070000\t0.001\n+1\t9340000\t9350000\t1\t9510000\t9520000\t0.001\n+1\t9650000\t9660000\t1\t10460000\t10470000\t0.001\n+1\t9680000\t9690000\t1\t9780000\t9790000\t0.001\n+1\t9830000\t9840000\t1\t9930000\t9940000\t0.001\n+1\t10270000\t10280000\t1\t10390000\t10400000\t0.001\n+1\t10560000\t10570000\t1\t11700000\t11710000\t0.001\n+1\t10560000\t10570000\t1\t10920000\t10930000\t0.001\n+1\t11090000\t11100000\t1\t11700000\t11710000\t0.001\n+1\t11390000\t11400000\t1\t11700000\t11710000\t0.001\n+1\t12170000\t12180000\t1\t12270000\t12280000\t0.001\n+1\t12400000\t12410000\t1\t13470000\t13480000\t0.001\n+1\t12370000\t12380000\t1\t12670000\t12680000\t0.001\n+1\t12600000\t12610000\t1\t13160000\t13170000\t0.001\n+1\t13110000\t13120000\t1\t13630000\t13640000\t0.001\n+1\t13160000\t13170000\t1\t14520000\t14530000\t0.001\n+1\t12960000\t12970000\t1\t14300000\t14310000\t0.001\n+1\t13010000\t13020000\t1\t13120000\t13130000\t0.001\n+1\t13030000\t13040000\t1\t13320000\t13330000\t0.001\n+1\t13320000\t13330000\t1\t13440000\t13450000\t0.001\n+1\t13350000\t13360000\t1\t13630000\t13640000\t0.008995826687529431\n+1\t13500000\t13510000\t1\t13720000\t13730000\t0.001\n+1\t13690000\t13700000\t1\t15390000\t15400000\t0.001\n+1\t13660000\t13670000\t1\t145980000\t145990000\t0.001\n+1\t13740000\t13750000\t1\t33440000\t33450000\t0.001\n+1\t13990000\t14000000\t1\t14280000\t14290000\t0.001\n+1\t13990000\t14000000\t1\t14130000\t14140000\t0.001\n+1\t14280000\t14290000\t1\t15370000\t15380000\t0.001\n+1\t14150000\t14160000\t1\t14280000\t14290000\t0.001\n+1\t14420000\t14430000\t1\t15620000\t15630000\t0.001\n+1\t14430000\t14440000\t1\t14890000\t14900000\t0.001\n+1\t14430000\t14440000\t1\t15370000\t15380000\t0.001\n+1\t14940000\t14950000\t1\t15050000\t15060000\t0.001\n+1\t14720000\t14730000\t1\t15380000\t15390000\t0.001\n+1\t15450000\t'..b'0000\t227900000\t0.001\n+1\t228790000\t228800000\t1\t229360000\t229370000\t0.001\n+1\t228790000\t228800000\t1\t229640000\t229650000\t0.001\n+1\t228880000\t228890000\t1\t228990000\t229000000\t0.001\n+1\t229390000\t229400000\t1\t230440000\t230450000\t0.001\n+1\t229390000\t229400000\t1\t229610000\t229620000\t0.001\n+1\t229850000\t229860000\t1\t230440000\t230450000\t0.001\n+1\t231050000\t231060000\t1\t231340000\t231350000\t0.001\n+1\t231490000\t231500000\t1\t231720000\t231730000\t0.001\n+1\t231990000\t232000000\t1\t233140000\t233150000\t0.001\n+1\t232000000\t232010000\t1\t233370000\t233380000\t0.001\n+1\t232000000\t232010000\t1\t232760000\t232770000\t0.001\n+1\t232770000\t232780000\t1\t233370000\t233380000\t0.001\n+1\t232770000\t232780000\t1\t233160000\t233170000\t0.001\n+1\t233480000\t233490000\t1\t234460000\t234470000\t0.001\n+1\t233730000\t233740000\t1\t234380000\t234390000\t0.001\n+1\t233530000\t233540000\t1\t234200000\t234210000\t0.001\n+1\t233570000\t233580000\t1\t233920000\t233930000\t0.001\n+1\t233620000\t233630000\t1\t233720000\t233730000\t0.001\n+1\t234340000\t234350000\t1\t234440000\t234450000\t0.001\n+1\t234610000\t234620000\t1\t235580000\t235590000\t0.001\n+1\t234630000\t234640000\t1\t235240000\t235250000\t0.001\n+1\t234630000\t234640000\t1\t235140000\t235150000\t0.001\n+1\t234630000\t234640000\t1\t234730000\t234740000\t0.001\n+1\t234740000\t234750000\t1\t234860000\t234870000\t0.001\n+1\t234860000\t234870000\t1\t234970000\t234980000\t0.001\n+1\t235140000\t235150000\t1\t235240000\t235250000\t0.001\n+1\t235410000\t235420000\t1\t235570000\t235580000\t0.001\n+1\t235670000\t235680000\t1\t235940000\t235950000\t0.001\n+1\t235670000\t235680000\t1\t236130000\t236140000\t0.001\n+1\t236020000\t236030000\t1\t236130000\t236140000\t0.001\n+1\t236270000\t236280000\t1\t236650000\t236660000\t0.001\n+1\t236320000\t236330000\t1\t236440000\t236450000\t0.001\n+1\t236260000\t236270000\t1\t237030000\t237040000\t0.001\n+1\t236770000\t236780000\t1\t237720000\t237730000\t0.001\n+1\t236770000\t236780000\t1\t237540000\t237550000\t0.001\n+1\t236910000\t236920000\t1\t237540000\t237550000\t0.001\n+1\t236920000\t236930000\t1\t237720000\t237730000\t0.001\n+1\t237080000\t237090000\t1\t237730000\t237740000\t0.001\n+1\t237970000\t237980000\t1\t240060000\t240070000\t0.001\n+1\t238010000\t238020000\t1\t239100000\t239110000\t0.001\n+1\t238400000\t238410000\t1\t240050000\t240060000\t0.001\n+1\t238610000\t238620000\t1\t240070000\t240080000\t0.001\n+1\t239570000\t239580000\t1\t240050000\t240060000\t0.001\n+1\t240890000\t240900000\t1\t241640000\t241650000\t0.001\n+1\t241050000\t241060000\t1\t241650000\t241660000\t0.001\n+1\t241770000\t241780000\t1\t242000000\t242010000\t0.001\n+1\t241690000\t241700000\t1\t241790000\t241800000\t0.001\n+1\t242180000\t242190000\t1\t243200000\t243210000\t0.001\n+1\t242630000\t242640000\t1\t243490000\t243500000\t0.001\n+1\t242630000\t242640000\t1\t243180000\t243190000\t0.001\n+1\t243370000\t243380000\t1\t243470000\t243480000\t0.001\n+1\t243220000\t243230000\t1\t244120000\t244130000\t0.001\n+1\t243500000\t243510000\t1\t244430000\t244440000\t0.001\n+1\t243510000\t243520000\t1\t243910000\t243920000\t0.001\n+1\t243870000\t243880000\t1\t244430000\t244440000\t0.001\n+1\t244160000\t244170000\t1\t244270000\t244280000\t0.001\n+1\t244760000\t244770000\t1\t245200000\t245210000\t0.001\n+1\t244760000\t244770000\t1\t244960000\t244970000\t0.001\n+1\t245310000\t245320000\t1\t246160000\t246170000\t0.001\n+1\t245310000\t245320000\t1\t246860000\t246870000\t0.001\n+1\t245310000\t245320000\t1\t246610000\t246620000\t0.001\n+1\t245310000\t245320000\t1\t246440000\t246450000\t0.001\n+1\t245680000\t245690000\t1\t246620000\t246630000\t0.001\n+1\t245820000\t245830000\t1\t246600000\t246610000\t0.001\n+1\t246170000\t246180000\t1\t246610000\t246620000\t0.001\n+1\t246050000\t246060000\t1\t246160000\t246170000\t0.001\n+1\t246170000\t246180000\t1\t246880000\t246890000\t0.001\n+1\t246660000\t246670000\t1\t246860000\t246870000\t0.001\n+1\t247190000\t247200000\t1\t247300000\t247310000\t0.001\n+1\t247370000\t247380000\t1\t247490000\t247500000\t0.001\n+1\t247550000\t247560000\t1\t247650000\t247660000\t0.001\n+1\t247840000\t247850000\t1\t249100000\t249110000\t0.001\n+1\t248090000\t248100000\t1\t249100000\t249110000\t0.001\n+1\t248080000\t248090000\t1\t248240000\t248250000\t0.001\n+1\t248400000\t248410000\t1\t249100000\t249110000\t0.001\n+1\t248600000\t248610000\t1\t248810000\t248820000\t0.001\n+1\t248560000\t248570000\t1\t249100000\t249110000\t0.001\n+1\t248900000\t248910000\t1\t249070000\t249080000\t0.001\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicValidateLocations/overlap_smc3_matched_locations --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicValidateLocations/overlap_smc3_matched_locations Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,530 @@\n+chr1\t1050000\t1060000\tchr1\t1180000\t1190000\t0.001\n+chr1\t1710000\t1720000\tchr1\t1830000\t1840000\t0.001\n+chr1\t1870000\t1880000\tchr1\t3340000\t3350000\t0.0019430592210407\n+chr1\t2120000\t2130000\tchr1\t2310000\t2320000\t0.001\n+chr1\t2120000\t2130000\tchr1\t2480000\t2490000\t0.001\n+chr1\t2130000\t2140000\tchr1\t3570000\t3580000\t0.001\n+chr1\t2340000\t2350000\tchr1\t3340000\t3350000\t0.001\n+chr1\t2340000\t2350000\tchr1\t2480000\t2490000\t0.001\n+chr1\t2480000\t2490000\tchr1\t3570000\t3580000\t0.001\n+chr1\t3400000\t3410000\tchr1\t3530000\t3540000\t0.001\n+chr1\t3820000\t3830000\tchr1\t5800000\t5810000\t0.001\n+chr1\t3820000\t3830000\tchr1\t4880000\t4890000\t0.001\n+chr1\t3830000\t3840000\tchr1\t4710000\t4720000\t0.001\n+chr1\t4710000\t4720000\tchr1\t4880000\t4890000\t0.001\n+chr1\t5570000\t5580000\tchr1\t5970000\t5980000\t0.001\n+chr1\t6540000\t6550000\tchr1\t6700000\t6710000\t0.001\n+chr1\t6770000\t6780000\tchr1\t7700000\t7710000\t0.001\n+chr1\t6770000\t6780000\tchr1\t7270000\t7280000\t0.001\n+chr1\t6780000\t6790000\tchr1\t7130000\t7140000\t0.001\n+chr1\t6850000\t6860000\tchr1\t6950000\t6960000\t0.001\n+chr1\t7100000\t7110000\tchr1\t7700000\t7710000\t0.001\n+chr1\t8080000\t8090000\tchr1\t8370000\t8380000\t0.001\n+chr1\t8620000\t8630000\tchr1\t8730000\t8740000\t0.001\n+chr1\t9340000\t9350000\tchr1\t9510000\t9520000\t0.001\n+chr1\t9680000\t9690000\tchr1\t9780000\t9790000\t0.001\n+chr1\t10270000\t10280000\tchr1\t10390000\t10400000\t0.001\n+chr1\t10560000\t10570000\tchr1\t11700000\t11710000\t0.001\n+chr1\t10560000\t10570000\tchr1\t10920000\t10930000\t0.001\n+chr1\t11090000\t11100000\tchr1\t11700000\t11710000\t0.001\n+chr1\t11390000\t11400000\tchr1\t11700000\t11710000\t0.001\n+chr1\t12370000\t12380000\tchr1\t12670000\t12680000\t0.001\n+chr1\t13990000\t14000000\tchr1\t14280000\t14290000\t0.001\n+chr1\t13990000\t14000000\tchr1\t14130000\t14140000\t0.001\n+chr1\t14150000\t14160000\tchr1\t14280000\t14290000\t0.001\n+chr1\t14280000\t14290000\tchr1\t15370000\t15380000\t0.001\n+chr1\t15450000\t15460000\tchr1\t15590000\t15600000\t0.001\n+chr1\t15650000\t15660000\tchr1\t15750000\t15760000\t0.001\n+chr1\t15920000\t15930000\tchr1\t16060000\t16070000\t0.001\n+chr1\t16400000\t16410000\tchr1\t16510000\t16520000\t0.001\n+chr1\t16570000\t16580000\tchr1\t16680000\t16690000\t0.001\n+chr1\t16920000\t16930000\tchr1\t21790000\t21800000\t0.001\n+chr1\t17270000\t17280000\tchr1\t17370000\t17380000\t0.001\n+chr1\t17450000\t17460000\tchr1\t17560000\t17570000\t0.001\n+chr1\t17820000\t17830000\tchr1\t17930000\t17940000\t0.001\n+chr1\t17980000\t17990000\tchr1\t18900000\t18910000\t0.001\n+chr1\t17980000\t17990000\tchr1\t18420000\t18430000\t0.001\n+chr1\t18310000\t18320000\tchr1\t18900000\t18910000\t0.001\n+chr1\t18920000\t18930000\tchr1\t19140000\t19150000\t0.001\n+chr1\t19230000\t19240000\tchr1\t19420000\t19430000\t0.001\n+chr1\t20240000\t20250000\tchr1\t20470000\t20480000\t0.001\n+chr1\t20240000\t20250000\tchr1\t20820000\t20830000\t0.001\n+chr1\t20840000\t20850000\tchr1\t20960000\t20970000\t0.001\n+chr1\t21020000\t21030000\tchr1\t21520000\t21530000\t0.001\n+chr1\t21020000\t21030000\tchr1\t21690000\t21700000\t0.001\n+chr1\t21580000\t21590000\tchr1\t21690000\t21700000\t0.001\n+chr1\t22450000\t22460000\tchr1\t22960000\t22970000\t0.001\n+chr1\t22450000\t22460000\tchr1\t22740000\t22750000\t0.001\n+chr1\t22740000\t22750000\tchr1\t22960000\t22970000\t0.001\n+chr1\t23030000\t23040000\tchr1\t23210000\t23220000\t0.001\n+chr1\t23860000\t23870000\tchr1\t23960000\t23970000\t0.001\n+chr1\t24130000\t24140000\tchr1\t24240000\t24250000\t0.001\n+chr1\t24520000\t24530000\tchr1\t24710000\t24720000\t0.001\n+chr1\t24740000\t24750000\tchr1\t24860000\t24870000\t0.001\n+chr1\t25010000\t25020000\tchr1\t25150000\t25160000\t0.001\n+chr1\t25720000\t25730000\tchr1\t26130000\t26140000\t0.001\n+chr1\t25930000\t25940000\tchr1\t26120000\t26130000\t0.001\n+chr1\t26220000\t26230000\tchr1\t26320000\t26330000\t0.001\n+chr1\t26360000\t26370000\tchr1\t26470000\t26480000\t0.001\n+chr1\t26930000\t26940000\tchr1\t27110000\t27120000\t0.001\n+chr1\t27430000\t27440000\tchr1\t27610000\t27620000\t0.001\n+chr1\t27620000\t27630000\tchr1\t27720000\t27730000\t0.001\n+chr1\t27720000\t27730000\tchr1\t27930000\t27940000\t0.001\n+chr1\t28180000\t28190000\tchr1\t28300000\t28310000\t0.001\n+chr1\t28180000\t28190000\tchr1\t28530000\t28540000\t0.001\n+chr1\t28410000\t28420000\tchr1\t28530000\t28540000\t0.001\n+chr1\t28570000\t28580000\tchr1\t28680000\t28690000\t0.001\n+chr1\t28680000\t28690000\tchr1\t29200000\t29'..b'00\t0.001\n+chr1\t220460000\t220470000\tchr1\t220950000\t220960000\t0.001\n+chr1\t221040000\t221050000\tchr1\t221370000\t221380000\t0.001\n+chr1\t221040000\t221050000\tchr1\t221600000\t221610000\t0.001\n+chr1\t221040000\t221050000\tchr1\t222620000\t222630000\t0.001\n+chr1\t221650000\t221660000\tchr1\t222340000\t222350000\t0.001\n+chr1\t221650000\t221660000\tchr1\t222620000\t222630000\t0.001\n+chr1\t221910000\t221920000\tchr1\t222010000\t222020000\t0.001\n+chr1\t221910000\t221920000\tchr1\t222620000\t222630000\t0.001\n+chr1\t222630000\t222640000\tchr1\t223250000\t223260000\t0.001\n+chr1\t222960000\t222970000\tchr1\t223260000\t223270000\t0.001\n+chr1\t222960000\t222970000\tchr1\t223870000\t223880000\t0.001\n+chr1\t223300000\t223310000\tchr1\t223870000\t223880000\t0.001\n+chr1\t223310000\t223320000\tchr1\t223410000\t223420000\t0.001\n+chr1\t223880000\t223890000\tchr1\t224520000\t224530000\t0.001\n+chr1\t224300000\t224310000\tchr1\t224510000\t224520000\t0.001\n+chr1\t224700000\t224710000\tchr1\t225040000\t225050000\t0.001\n+chr1\t224880000\t224890000\tchr1\t225030000\t225040000\t0.001\n+chr1\t225660000\t225670000\tchr1\t226160000\t226170000\t0.001\n+chr1\t225960000\t225970000\tchr1\t226090000\t226100000\t0.001\n+chr1\t226170000\t226180000\tchr1\t226300000\t226310000\t0.001\n+chr1\t226730000\t226740000\tchr1\t227630000\t227640000\t0.001\n+chr1\t226820000\t226830000\tchr1\t227010000\t227020000\t0.001\n+chr1\t227660000\t227670000\tchr1\t228130000\t228140000\t0.001\n+chr1\t229390000\t229400000\tchr1\t230440000\t230450000\t0.001\n+chr1\t229390000\t229400000\tchr1\t229610000\t229620000\t0.001\n+chr1\t229850000\t229860000\tchr1\t230440000\t230450000\t0.001\n+chr1\t231050000\t231060000\tchr1\t231340000\t231350000\t0.001\n+chr1\t231490000\t231500000\tchr1\t231720000\t231730000\t0.001\n+chr1\t232000000\t232010000\tchr1\t233370000\t233380000\t0.001\n+chr1\t232000000\t232010000\tchr1\t232760000\t232770000\t0.001\n+chr1\t232770000\t232780000\tchr1\t233370000\t233380000\t0.001\n+chr1\t232770000\t232780000\tchr1\t233160000\t233170000\t0.001\n+chr1\t233530000\t233540000\tchr1\t234200000\t234210000\t0.001\n+chr1\t233570000\t233580000\tchr1\t233920000\t233930000\t0.001\n+chr1\t234340000\t234350000\tchr1\t234440000\t234450000\t0.001\n+chr1\t234610000\t234620000\tchr1\t235580000\t235590000\t0.001\n+chr1\t234630000\t234640000\tchr1\t235240000\t235250000\t0.001\n+chr1\t234630000\t234640000\tchr1\t235140000\t235150000\t0.001\n+chr1\t234630000\t234640000\tchr1\t234730000\t234740000\t0.001\n+chr1\t234740000\t234750000\tchr1\t234860000\t234870000\t0.001\n+chr1\t234860000\t234870000\tchr1\t234970000\t234980000\t0.001\n+chr1\t235140000\t235150000\tchr1\t235240000\t235250000\t0.001\n+chr1\t235410000\t235420000\tchr1\t235570000\t235580000\t0.001\n+chr1\t235670000\t235680000\tchr1\t235940000\t235950000\t0.001\n+chr1\t235670000\t235680000\tchr1\t236130000\t236140000\t0.001\n+chr1\t236020000\t236030000\tchr1\t236130000\t236140000\t0.001\n+chr1\t236260000\t236270000\tchr1\t237030000\t237040000\t0.001\n+chr1\t236270000\t236280000\tchr1\t236650000\t236660000\t0.001\n+chr1\t236320000\t236330000\tchr1\t236440000\t236450000\t0.001\n+chr1\t236770000\t236780000\tchr1\t237720000\t237730000\t0.001\n+chr1\t236770000\t236780000\tchr1\t237540000\t237550000\t0.001\n+chr1\t236910000\t236920000\tchr1\t237540000\t237550000\t0.001\n+chr1\t236920000\t236930000\tchr1\t237720000\t237730000\t0.001\n+chr1\t237970000\t237980000\tchr1\t240060000\t240070000\t0.001\n+chr1\t240890000\t240900000\tchr1\t241640000\t241650000\t0.001\n+chr1\t241690000\t241700000\tchr1\t241790000\t241800000\t0.001\n+chr1\t243500000\t243510000\tchr1\t244430000\t244440000\t0.001\n+chr1\t243510000\t243520000\tchr1\t243910000\t243920000\t0.001\n+chr1\t243870000\t243880000\tchr1\t244430000\t244440000\t0.001\n+chr1\t244760000\t244770000\tchr1\t245200000\t245210000\t0.001\n+chr1\t244760000\t244770000\tchr1\t244960000\t244970000\t0.001\n+chr1\t245310000\t245320000\tchr1\t246160000\t246170000\t0.001\n+chr1\t245310000\t245320000\tchr1\t246860000\t246870000\t0.001\n+chr1\t245310000\t245320000\tchr1\t246610000\t246620000\t0.001\n+chr1\t245310000\t245320000\tchr1\t246440000\t246450000\t0.001\n+chr1\t246050000\t246060000\tchr1\t246160000\t246170000\t0.001\n+chr1\t246170000\t246180000\tchr1\t246610000\t246620000\t0.001\n+chr1\t246660000\t246670000\tchr1\t246860000\t246870000\t0.001\n+chr1\t247370000\t247380000\tchr1\t247490000\t247500000\t0.001\n+chr1\t247550000\t247560000\tchr1\t247650000\t247660000\t0.001\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/hicValidateLocations/overlap_smc3_statistics --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicValidateLocations/overlap_smc3_statistics Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,7 @@ +# HiCExplorer hicValidateLocations 3.7.2 +# Overlap of loop file /tmp/tmpjjk1hb59/files/a/8/9/dataset_a8916559-7d4d-42e7-b157-fdc26b57c5e2.dat with protein file /tmp/tmpjjk1hb59/files/e/5/a/dataset_e5ab267d-b489-4abc-88ce-c408eadfd25b.dat +# +Protein peaks: 3097 +Matched Loops: 530 +Total Loops: 1007 +Loops match protein: 0.5263157894736842 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/li_32-33mb_interactions.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/li_32-33mb_interactions.bedgraph Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,2 @@ +X 3139841 3367043 X 2851659 3139841 28764.634828529033 +X 3139841 3367043 X 3139841 3367043 139691.503741355060 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/li_viewpoint_32-33Mb.png |
| b |
| Binary file test-data/li_viewpoint_32-33Mb.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/li_viewpoint_32Mb.png |
| b |
| Binary file test-data/li_viewpoint_32Mb.png has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/multiNone_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/multiNone_domains.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1402 @@\n+chr3L\t165000\t260000\tID_0.01_1\t-0.103166750000\t.\t165000\t260000\t31,120,180\n+chr3L\t260000\t335000\tID_0.01_2\t-0.026655000000\t.\t260000\t335000\t51,160,44\n+chr3L\t335000\t360000\tID_0.01_3\t-0.030848000000\t.\t335000\t360000\t31,120,180\n+chr3L\t360000\t485000\tID_0.01_4\t-0.058081500000\t.\t360000\t485000\t51,160,44\n+chr3L\t485000\t525000\tID_0.01_5\t-0.071697750000\t.\t485000\t525000\t31,120,180\n+chr3L\t525000\t680000\tID_0.01_6\t-0.106040500000\t.\t525000\t680000\t51,160,44\n+chr3L\t680000\t705000\tID_0.01_7\t-0.014885500000\t.\t680000\t705000\t31,120,180\n+chr3L\t705000\t740000\tID_0.01_8\t0.002784000000\t.\t705000\t740000\t51,160,44\n+chr3L\t740000\t870000\tID_0.01_9\t0.009499750000\t.\t740000\t870000\t31,120,180\n+chr3L\t870000\t1010000\tID_0.01_10\t-0.095469750000\t.\t870000\t1010000\t51,160,44\n+chr3L\t1010000\t1040000\tID_0.01_11\t-0.051821750000\t.\t1010000\t1040000\t31,120,180\n+chr3L\t1040000\t1110000\tID_0.01_12\t-0.058748750000\t.\t1040000\t1110000\t51,160,44\n+chr3L\t1110000\t1210000\tID_0.01_13\t-0.048349000000\t.\t1110000\t1210000\t31,120,180\n+chr3L\t1210000\t1245000\tID_0.01_14\t-0.056756500000\t.\t1210000\t1245000\t51,160,44\n+chr3L\t1245000\t1300000\tID_0.01_15\t-0.064143500000\t.\t1245000\t1300000\t31,120,180\n+chr3L\t1300000\t1465000\tID_0.01_16\t-0.091379000000\t.\t1300000\t1465000\t51,160,44\n+chr3L\t1465000\t1535000\tID_0.01_17\t-0.013072250000\t.\t1465000\t1535000\t31,120,180\n+chr3L\t1535000\t1580000\tID_0.01_18\t-0.087115250000\t.\t1535000\t1580000\t51,160,44\n+chr3L\t1580000\t1640000\tID_0.01_19\t-0.082358750000\t.\t1580000\t1640000\t31,120,180\n+chr3L\t1640000\t1670000\tID_0.01_20\t-0.062875500000\t.\t1640000\t1670000\t51,160,44\n+chr3L\t1670000\t1735000\tID_0.01_21\t-0.037945000000\t.\t1670000\t1735000\t31,120,180\n+chr3L\t1735000\t1815000\tID_0.01_22\t-0.050313000000\t.\t1735000\t1815000\t51,160,44\n+chr3L\t1815000\t1850000\tID_0.01_23\t-0.017235250000\t.\t1815000\t1850000\t31,120,180\n+chr3L\t1850000\t1925000\tID_0.01_24\t-0.025997500000\t.\t1850000\t1925000\t51,160,44\n+chr3L\t1925000\t2155000\tID_0.01_25\t0.000083250000\t.\t1925000\t2155000\t31,120,180\n+chr3L\t2155000\t2260000\tID_0.01_26\t-0.040196500000\t.\t2155000\t2260000\t51,160,44\n+chr3L\t2260000\t2390000\tID_0.01_27\t-0.075185750000\t.\t2260000\t2390000\t31,120,180\n+chr3L\t2390000\t2460000\tID_0.01_28\t-0.072071000000\t.\t2390000\t2460000\t51,160,44\n+chr3L\t2460000\t2560000\tID_0.01_29\t-0.091323250000\t.\t2460000\t2560000\t31,120,180\n+chr3L\t2560000\t2600000\tID_0.01_30\t-0.091796750000\t.\t2560000\t2600000\t51,160,44\n+chr3L\t2600000\t2740000\tID_0.01_31\t-0.093485500000\t.\t2600000\t2740000\t31,120,180\n+chr3L\t2740000\t2885000\tID_0.01_32\t-0.089278750000\t.\t2740000\t2885000\t51,160,44\n+chr3L\t2885000\t2945000\tID_0.01_33\t-0.089725750000\t.\t2885000\t2945000\t31,120,180\n+chr3L\t2945000\t2960000\tID_0.01_34\t0.029899000000\t.\t2945000\t2960000\t51,160,44\n+chr3L\t2960000\t3045000\tID_0.01_35\t0.035686500000\t.\t2960000\t3045000\t31,120,180\n+chr3L\t3045000\t3135000\tID_0.01_36\t-0.004668750000\t.\t3045000\t3135000\t51,160,44\n+chr3L\t3135000\t3220000\tID_0.01_37\t0.055702000000\t.\t3135000\t3220000\t31,120,180\n+chr3L\t3220000\t3255000\tID_0.01_38\t-0.059463000000\t.\t3220000\t3255000\t51,160,44\n+chr3L\t3255000\t3315000\tID_0.01_39\t-0.045796000000\t.\t3255000\t3315000\t31,120,180\n+chr3L\t3315000\t3345000\tID_0.01_40\t-0.054998750000\t.\t3315000\t3345000\t51,160,44\n+chr3L\t3345000\t3475000\tID_0.01_41\t-0.042340750000\t.\t3345000\t3475000\t31,120,180\n+chr3L\t3475000\t3515000\tID_0.01_42\t-0.050976750000\t.\t3475000\t3515000\t51,160,44\n+chr3L\t3515000\t3545000\tID_0.01_43\t-0.012488000000\t.\t3515000\t3545000\t31,120,180\n+chr3L\t3545000\t3615000\tID_0.01_44\t0.024579250000\t.\t3545000\t3615000\t51,160,44\n+chr3L\t3615000\t3670000\tID_0.01_45\t0.019683000000\t.\t3615000\t3670000\t31,120,180\n+chr3L\t3670000\t3765000\tID_0.01_46\t0.099453250000\t.\t3670000\t3765000\t51,160,44\n+chr3L\t3765000\t3785000\tID_0.01_47\t-0.047454000000\t.\t3765000\t3785000\t31,120,180\n+chr3L\t3785000\t3825000\tID_0.01_48\t-0.041084000000\t.\t3785000\t3825000\t51,160,44\n+chr3L\t3825000\t3900000\tID_0.01_49\t-0.061011750000\t.\t3825000\t3900000\t31,120,180\n+chr3L\t3900000\t4000000\tID_0.01_50\t-0.068453500000\t.\t3900000\t4000000\t51,160,44\n+chr3L\t4000000\t4120000\tID_0.01_51\t-0.030078750000\t.\t4000000\t4120000\t31,120,180\n+chr3L\t4120000\t4165000\tID_0.01_5'..b'.\t22780000\t22885000\t31,120,180\n+chr3R\t22885000\t22985000\tID_0.01_1356\t-0.056834750000\t.\t22885000\t22985000\t51,160,44\n+chr3R\t22985000\t23110000\tID_0.01_1357\t-0.023781500000\t.\t22985000\t23110000\t31,120,180\n+chr3R\t23110000\t23185000\tID_0.01_1358\t-0.100625000000\t.\t23110000\t23185000\t51,160,44\n+chr3R\t23185000\t23195000\tID_0.01_1359\t-0.002947250000\t.\t23185000\t23195000\t31,120,180\n+chr3R\t23195000\t23415000\tID_0.01_1360\t-0.002757750000\t.\t23195000\t23415000\t51,160,44\n+chr3R\t23415000\t23560000\tID_0.01_1361\t-0.090027000000\t.\t23415000\t23560000\t31,120,180\n+chr3R\t23560000\t23770000\tID_0.01_1362\t-0.104602000000\t.\t23560000\t23770000\t51,160,44\n+chr3R\t23770000\t23815000\tID_0.01_1363\t-0.111910500000\t.\t23770000\t23815000\t31,120,180\n+chr3R\t23815000\t23920000\tID_0.01_1364\t-0.066076500000\t.\t23815000\t23920000\t51,160,44\n+chr3R\t23920000\t24030000\tID_0.01_1365\t-0.042184750000\t.\t23920000\t24030000\t31,120,180\n+chr3R\t24030000\t24160000\tID_0.01_1366\t-0.055795750000\t.\t24030000\t24160000\t51,160,44\n+chr3R\t24160000\t24205000\tID_0.01_1367\t-0.015467250000\t.\t24160000\t24205000\t31,120,180\n+chr3R\t24205000\t24345000\tID_0.01_1368\t-0.032601500000\t.\t24205000\t24345000\t51,160,44\n+chr3R\t24345000\t24375000\tID_0.01_1369\t-0.062306500000\t.\t24345000\t24375000\t31,120,180\n+chr3R\t24375000\t24450000\tID_0.01_1370\t-0.074939500000\t.\t24375000\t24450000\t51,160,44\n+chr3R\t24450000\t24625000\tID_0.01_1371\t-0.098360750000\t.\t24450000\t24625000\t31,120,180\n+chr3R\t24625000\t24745000\tID_0.01_1372\t-0.031713750000\t.\t24625000\t24745000\t51,160,44\n+chr3R\t24745000\t24885000\tID_0.01_1373\t-0.085896250000\t.\t24745000\t24885000\t31,120,180\n+chr3R\t24885000\t24995000\tID_0.01_1374\t-0.093237250000\t.\t24885000\t24995000\t51,160,44\n+chr3R\t24995000\t25090000\tID_0.01_1375\t-0.058978500000\t.\t24995000\t25090000\t31,120,180\n+chr3R\t25090000\t25165000\tID_0.01_1376\t0.036742250000\t.\t25090000\t25165000\t51,160,44\n+chr3R\t25165000\t25330000\tID_0.01_1377\t-0.046246500000\t.\t25165000\t25330000\t31,120,180\n+chr3R\t25330000\t25405000\tID_0.01_1378\t-0.083033250000\t.\t25330000\t25405000\t51,160,44\n+chr3R\t25405000\t25570000\tID_0.01_1379\t-0.005462250000\t.\t25405000\t25570000\t31,120,180\n+chr3R\t25570000\t25580000\tID_0.01_1380\t-0.046540750000\t.\t25570000\t25580000\t51,160,44\n+chr3R\t25580000\t25730000\tID_0.01_1381\t-0.018715750000\t.\t25580000\t25730000\t31,120,180\n+chr3R\t25730000\t25880000\tID_0.01_1382\t-0.008588750000\t.\t25730000\t25880000\t51,160,44\n+chr3R\t25880000\t25990000\tID_0.01_1383\t-0.105816250000\t.\t25880000\t25990000\t31,120,180\n+chr3R\t25990000\t26050000\tID_0.01_1384\t-0.090403000000\t.\t25990000\t26050000\t51,160,44\n+chr3R\t26050000\t26180000\tID_0.01_1385\t-0.093531500000\t.\t26050000\t26180000\t31,120,180\n+chr3R\t26180000\t26275000\tID_0.01_1386\t-0.114692750000\t.\t26180000\t26275000\t51,160,44\n+chr3R\t26275000\t26330000\tID_0.01_1387\t-0.100273500000\t.\t26275000\t26330000\t31,120,180\n+chr3R\t26330000\t26490000\tID_0.01_1388\t-0.092304000000\t.\t26330000\t26490000\t51,160,44\n+chr3R\t26490000\t26565000\tID_0.01_1389\t0.062796500000\t.\t26490000\t26565000\t31,120,180\n+chr3R\t26565000\t26640000\tID_0.01_1390\t-0.019744750000\t.\t26565000\t26640000\t51,160,44\n+chr3R\t26640000\t26715000\tID_0.01_1391\t-0.074307250000\t.\t26640000\t26715000\t31,120,180\n+chr3R\t26715000\t26870000\tID_0.01_1392\t-0.049789000000\t.\t26715000\t26870000\t51,160,44\n+chr3R\t26870000\t27045000\tID_0.01_1393\t-0.024990500000\t.\t26870000\t27045000\t31,120,180\n+chr3R\t27045000\t27155000\tID_0.01_1394\t-0.074189000000\t.\t27045000\t27155000\t51,160,44\n+chr3R\t27155000\t27185000\tID_0.01_1395\t-0.006099250000\t.\t27155000\t27185000\t31,120,180\n+chr3R\t27185000\t27250000\tID_0.01_1396\t-0.012810250000\t.\t27185000\t27250000\t51,160,44\n+chr3R\t27250000\t27385000\tID_0.01_1397\t-0.049902750000\t.\t27250000\t27385000\t31,120,180\n+chr3R\t27385000\t27420000\tID_0.01_1398\t-0.041305000000\t.\t27385000\t27420000\t51,160,44\n+chr3R\t27420000\t27570000\tID_0.01_1399\t-0.049929500000\t.\t27420000\t27570000\t31,120,180\n+chr3R\t27570000\t27700000\tID_0.01_1400\t-0.080943250000\t.\t27570000\t27700000\t51,160,44\n+chr3R\t27700000\t27750000\tID_0.01_1401\t-0.015350000000\t.\t27700000\t27750000\t31,120,180\n+chr3R\t27750000\t27770000\tID_0.01_1402\t0.013577250000\t.\t27750000\t27770000\t51,160,44\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/raw_qc_report --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/raw_qc_report Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,29 @@ + +File matrix.cool +Sequenced reads 983 +Min rest. site distance 300 +Max library insert size 1000 + +# count (percentage w.r.t. total sequenced reads) +Pairs mappable, unique and high quality 300 (30.52) +Hi-C contacts 215 (21.87) +One mate unmapped 506 (51.48) +One mate not unique 13 (1.32) +Low mapping quality 164 (16.68) + +# count (percentage w.r.t. mappable, unique and high quality pairs) +dangling end GATC (restriction sequence GATC) 1 (0.33) +self ligation (removed) 0 (0.00) +One mate not close to rest site 0 (0.00) +same fragment 84 (28.00) +self circle 33 (11.00) +duplicated pairs 0 (0.00) + +# count (percentage w.r.t. total valid pairs used) +inter chromosomal 24 (11.16) +Intra short range (< 20kb) 61 (28.37) +Intra long range (>= 20kb) 130 (60.47) +Read pair type: inward pairs 42 (19.53) +Read pair type: outward pairs 66 (30.70) +Read pair type: left pairs 48 (22.33) +Read pair type: right pairs 35 (16.28) |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/regions.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/regions.bed Wed Oct 18 17:02:07 2023 +0000 |
| b |
| @@ -0,0 +1,2 @@ +chrX 10000000 15000000 +chrX 18000000 22000000 |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/small_test_R1_unsorted.sam --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/small_test_R1_unsorted.sam Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1000 @@\n+@HD\tVN:1.0\tSO:unsorted\n+@SQ\tSN:chr2L\tLN:23011544\n+@SQ\tSN:chr2LHet\tLN:368872\n+@SQ\tSN:chr2R\tLN:21146708\n+@SQ\tSN:chr2RHet\tLN:3288761\n+@SQ\tSN:chr3L\tLN:24543557\n+@SQ\tSN:chr3LHet\tLN:2555491\n+@SQ\tSN:chr3R\tLN:27905053\n+@SQ\tSN:chr3RHet\tLN:2517507\n+@SQ\tSN:chr4\tLN:1351857\n+@SQ\tSN:chrM\tLN:19517\n+@SQ\tSN:chrUextra\tLN:29004656\n+@SQ\tSN:chrU\tLN:10049037\n+@SQ\tSN:chrX\tLN:22422827\n+@SQ\tSN:chrXHet\tLN:204112\n+@SQ\tSN:chrYHet\tLN:347038\n+@PG\tID:bowtie2\tPN:bowtie2\tVN:2.0.5\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1121:2099\t4\t*\t0\t0\t*\t*\t0\t0\tTGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t(8;@##############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1187:2101\t4\t*\t0\t0\t*\t*\t0\t0\tTTATNTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<@#2@?##########################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1158:2104\t4\t*\t0\t0\t*\t*\t0\t0\tAAAANAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<?#2@###########################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1087:2104\t4\t*\t0\t0\t*\t*\t0\t0\tCAACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<?##############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1164:2117\t4\t*\t0\t0\t*\t*\t0\t0\tAACANACATTATTNTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<@#2-:<;@@@#####################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1182:2118\t4\t*\t0\t0\t*\t*\t0\t0\tTCTANGGTAGCTTTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t;;;?#2::<?>>?@??##################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1242:2118\t4\t*\t0\t0\t*\t*\t0\t0\tGGCTNGCAACTGAACANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<?#2=@?@??>?@?##################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1122:2120\t4\t*\t0\t0\t*\t*\t0\t0\tCCCANANANNANNTNNGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<?##############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1072:2126\t4\t*\t0\t0\t*\t*\t0\t0\tCNTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<#0@##############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1214:2131\t4\t*\t0\t0\t*\t*\t0\t0\tTGCTTTAAGAGCGGAAGAGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t9;<???=@?#########################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1188:2141\t4\t*\t0\t0\t*\t*\t0\t0\tAGAAGTTAAACTAAAGCTAAGCNNNNNNNTGTNNNNNNNNNNNNNNNNNN\t<<;;??@@?@???@?<:?@?##############################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1220:2147\t4\t*\t0\t0\t*\t*\t0\t0\tGGCTTGTTGCTTCATTTGTTGCACNTTAAACAAGNNNNNNNNNNNNNNCC\t>==AAAAABBCBACBBCB7AA=@B#2<??A<ABB################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1075:2148\t4\t*\t0\t0\t*\t*\t0\t0\tANTCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<#4<@#############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1175:2152\t4\t*\t0\t0\t*\t*\t0\t0\tATGTTCTCATAATAGCAGAAAGCANAGAAGATGCNNNNGTNNNNNNNCAG\t@@@DDDDDHHHFFIIAHIIIFGII#3AFHI@GGI################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1235:2156\t16\tchr2L\t17448552\t24\t9S30M11S\t*\t0\t0\tGTGNNNNNNAAAAATAAATAAATACAAGGGGCAAAAGCTATCTTACGCCG\t#########JJJIHGJIGIJIEGIGJJJIHDIJIJIIHFHHHFFFFF@C@\tAS:i:60\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:30\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1117:2156\t4\t*\t0\t0\t*\t*\t0\t0\tCGAGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<<<@@@############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1052:2158\t4\t*\t0\t0\t*\t*\t0\t0\tANTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t<#0@##############################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1150:2167\t16\tchr2L\t20717028\t22\t26S24M\t*\t0\t0\tTNCAGCTGGTTNCGAGGTGGGAAGCTAGCTTTCTAGAAACCGCCTCCAAA\t##HGCEFGC;.#GIGIJIJJIIGGJIJIIIIJJIIHIHFHHHFFFFFCC@\tAS:i:48\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:24\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1212:2169\t4\t*\t0\t0\t*\t*\t0\t0\tAAAAAACAAAGCTAGCTTCGTGTTTGTTTAAATTATATTAATATTTTATG\t@@@DDDDBFHHFF?FGGGGIBACGG*)19:CF*:?BB9?9?#########\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1082:2169\t4\t*\t0\t0\t*\t*\t0\t0\tACTTTNNNN'..b'\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6220:2160\t4\t*\t0\t0\t*\t*\t0\t0\tCTGAGTATCCTTTTTCAAGTAACTCGTCTTTATCGNATTTGNNNNNNTTA\t##################################################\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6080:2161\t16\tchr2L\t20418636\t42\t9S41M\t*\t0\t0\tCTTNNNNNNAATACTTTCGTGTACATTATTGCAAATTTTAGGCTTTGGAG\t#########JIHDJJIIJJIJIIJJJJJJJJJJJJJJHHHHHFFEFFCC@\tAS:i:82\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:41\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6107:2165\t0\tchr2R\t1793463\t0\t22M28S\t*\t0\t0\tTCCTGTCAGTCCAAGAAAAGCTAGCTTCAAGGAATGCGAACCNNNNNTGG\tCCCFFFFFHHHHHJJJJJJJJJJJJJJJJJJJJJJJJJJJIJ########\tAS:i:44\tXS:i:44\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:22\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6008:2166\t0\tchr3R\t7743490\t41\t50M\t*\t0\t0\tGACGGTCAGTCCGAGAAGCATCTGGAGCCGATGGCCAGTTTCNNNNNGCG\t@@@FFDDDHAHFFFHIJIGIJEIGGGGGHGHIHIFGHJEHDI########\tAS:i:77\tXN:i:0\tXM:i:6\tXO:i:0\tXG:i:0\tNM:i:6\tMD:Z:16G25G0G0G0G0C3\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6164:2167\t0\tchrU\t1886379\t2\t14S36M\t*\t0\t0\tCGCATTTGAAAGCTAGCTTTCTAGTTTCACTTGTTTGTTTTTNNNNGTTT\tB@CFFFFFHHHHGJHIIIJJJJIJIIJJJJIJIIIJIGIJJJ########\tAS:i:60\tXS:i:56\tXN:i:0\tXM:i:4\tXO:i:0\tXG:i:0\tNM:i:4\tMD:Z:28T0T0T0T4\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6028:2168\t16\tchr3L\t23880171\t0\t27S23M\t*\t0\t0\tAGGAANNNGGACACTATCGAAAAAGCTAGCTTGCAAAGTTCAAATGACCG\t?B800###IIHC<GGFCIHIJJJJJJIJJJJJIJJIIHHGHGFFFDB@@B\tAS:i:46\tXS:i:46\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:23\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6130:2172\t0\tchr3L\t20041224\t44\t50M\t*\t0\t0\tCGAGGAAGCTGCAAATGGTACGGAGCTGCTGGCTGAGGACGTGTTTGTTG\t@@@BDDDDDFDDF9ABGH<CFFHHHGIIIIGIDEG@F)?FG6B8BB;B@@\tAS:i:96\tXN:i:0\tXM:i:1\tXO:i:0\tXG:i:0\tNM:i:1\tMD:Z:37T12\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6218:2174\t16\tchr2R\t19978961\t44\t50M\t*\t0\t0\tAGGAGCGTTCGTACAAGCGAAGCTCGCCGGAGGACGACAAGCTGAGGCGC\t3>9;AEEE?G@=@@@/A:=<BDDGIFC:AGIGFCGHBDDFHDDDDDD@@@\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6240:2175\t16\tchr2L\t8736543\t42\t50M\t*\t0\t0\tTTAAGTGGACTTCGTTAATGTTTTAAATTTGAAGAATATTTTACGAGTTA\tHIGIHEHFBGIIFJJJIGGJJIJJIJJJJJIIIJIJJHHHHHDFFFFB@@\tAS:i:85\tXN:i:0\tXM:i:2\tXO:i:0\tXG:i:0\tNM:i:2\tMD:Z:4A25C19\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6080:2181\t0\tchr2L\t22737721\t44\t1S49M\t*\t0\t0\tACTCAGTATATATTAAAAGTTTGTTTATACAATATCCTTTTAATAGGTAT\t<@@FFFDDHAHHHJJIEGICHHGFHHEIJJJIIJJJJJIJJGIJIII?FI\tAS:i:98\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:49\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6184:2183\t16\tchr2L\t1627623\t44\t50M\t*\t0\t0\tTTTAGTTATTGGGCTTTAAAAAAATCTAAATTCTGTCATGATTGATTCTG\tJJJJJJIGIIIIIIJIJJJJJJJJJJJJJJIIJIJIJHHHHHFFFFFBCC\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6206:2186\t16\tchr3R\t5530104\t44\t50M\t*\t0\t0\tCACGACGGGACGCCCTAACGGTATCGTGTGTAATTGCAGTTGCACAAGCA\t<@GHCBJIHBJIJJJJJHIJJJIJJJJIGJIIIIGIGHHHGGFDFFFC@@\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6022:2190\t0\tchr3R\t17305312\t36\t40M10S\t*\t0\t0\tACTATAGAAATCTATTAAAAGTATTCCATGTAAGCTAGCTTCTCCACTGT\t?@@BDDDFG?HHHEHIIIIIIHHIIIIFIGIIIIIIIIIGDDHGFFHDGD\tAS:i:72\tXN:i:0\tXM:i:1\tXO:i:0\tXG:i:0\tNM:i:1\tMD:Z:36T3\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6130:2190\t0\tchr2R\t13131924\t36\t36M14S\t*\t0\t0\tATATTGAATTCGAGTCAGAAAAAATAAAACGAAGCTAGCTTATCTGTCAT\tCCCFFDFFGGGHDHHGEIHIIJEIJJJJIJJGIJJJJJJJJJJJJIIIJJ\tAS:i:72\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:36\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6163:2192\t16\tchr2L\t7371337\t2\t26M24S\t*\t0\t0\tGGGTTCTCCACCAGCCGGCAAAAGCTAGCTTAAATTAACTTTTAGTTTTA\tFB)B;B=HD9JJJJIJJJJJJJJJJJJJJJJJJJJJHFHHGHFFFFFCCC\tAS:i:52\tXS:i:48\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:26\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6060:2193\t16\tchr3R\t9331177\t44\t50M\t*\t0\t0\tGCTTACTCCTTTGCAGCACTAGTACTAATTTTTTATTTTTTCGAATTTTC\tGGHFCHFGGIJJIGIIHGIIEFGDIJJJIJJJJJIJIHHHHHFFFFFCC@\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6038:2194\t0\tchrYHet\t283249\t2\t17S33M\t*\t0\t0\tAGGCAGTAAGGCAGTAAGCTAGCTTGCTATGGTATTTTTCCTTAAGTTCC\t@@@DDDDDHHHHHIIGIDC<<EEHICG@?<C>11?ECG<CCDHAAAFFGE\tAS:i:66\tXS:i:60\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:33\tYT:Z:UU\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/small_test_R2_unsorted.sam --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/small_test_R2_unsorted.sam Wed Oct 18 17:02:07 2023 +0000 |
| b |
| b'@@ -0,0 +1,1000 @@\n+@HD\tVN:1.0\tSO:unsorted\n+@SQ\tSN:chr2L\tLN:23011544\n+@SQ\tSN:chr2LHet\tLN:368872\n+@SQ\tSN:chr2R\tLN:21146708\n+@SQ\tSN:chr2RHet\tLN:3288761\n+@SQ\tSN:chr3L\tLN:24543557\n+@SQ\tSN:chr3LHet\tLN:2555491\n+@SQ\tSN:chr3R\tLN:27905053\n+@SQ\tSN:chr3RHet\tLN:2517507\n+@SQ\tSN:chr4\tLN:1351857\n+@SQ\tSN:chrM\tLN:19517\n+@SQ\tSN:chrUextra\tLN:29004656\n+@SQ\tSN:chrU\tLN:10049037\n+@SQ\tSN:chrX\tLN:22422827\n+@SQ\tSN:chrXHet\tLN:204112\n+@SQ\tSN:chrYHet\tLN:347038\n+@PG\tID:bowtie2\tPN:bowtie2\tVN:2.0.5\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1121:2099\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1187:2101\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1158:2104\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1087:2104\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1164:2117\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1182:2118\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1242:2118\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1122:2120\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1072:2126\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1214:2131\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNAGGATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1188:2141\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNCTCTGCTTTNNNNNNNNNTTNTCGNCCNNNNNNNNNNNNNNNNNN\t#####22=CFDDHH####################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1220:2147\t4\t*\t0\t0\t*\t*\t0\t0\tNGANNGCGGCTAAGNNNNNCCATGAAAAGGGANNNNNNNNNNNNNNNNNN\t#11##22ABDFFHB#####22:?FFHHFHGH###################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1075:2148\t4\t*\t0\t0\t*\t*\t0\t0\tNGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1175:2152\t4\t*\t0\t0\t*\t*\t0\t0\tNGCNNTACAGAAGCTGNNTGAATTTTTCGTGAATNNNNNNNNNNNNNNNN\t#1=##22ACD?CBDGI##3<ABGIIJJFH?B?CD################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1235:2156\t4\t*\t0\t0\t*\t*\t0\t0\tNAANNAATTGAAAACCTNTCCGGCGTATTTGAGTGGNNNCNNNNNNNNNN\t#1=##2=AFFFHHGHII#3AFHIGIDHHEGIFG?FG##############\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1117:2156\t4\t*\t0\t0\t*\t*\t0\t0\tNTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1052:2158\t4\t*\t0\t0\t*\t*\t0\t0\tNTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1150:2167\t4\t*\t0\t0\t*\t*\t0\t0\tCGCTTACATAATTACGGGCATGGAATGGATTTTCGCTANGTNTCNNNNNN\tCCCFFFFFHHHHHIJJJJIIIJJFGIIJEGIJJHGIJJ############\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1212:2169\t0\tchr3L\t19013959\t44\t50M\t*\t0\t0\tTTCGATTGCAATTACATTACGCTGGCCAGGGCAACAGAACAATANNAGNA\t@@@FDDBDBHHHHBDAEFCHHHCGHGHHHDBHCCDF?DHHFGG@######\tAS:i:91\tXN:i:0\tXM:i:3\tXO:i:0\tXG:i:0\tNM:i:3\tMD:Z:44A0C2A1\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:1082:2169\t4\t*\t0\t0\t*\t*\t0\t0\tCGGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN\tCCCFF######'..b'142\t4\t*\t0\t0\t*\t*\t0\t0\tNNNNNTTTTTTTTNNNNNNNNNNNNNCCTNCNNNNNNNNNNNNNNNNNNN\t#####22=CBHH######################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6140:2157\t4\t*\t0\t0\t*\t*\t0\t0\tNTANNTAATATTTACCCNCCCAAACTTATTGCCANNNNNNNNNNNNNNNN\t#4=##2=BFDHHHJJIJ#3CGHIIJIGJJI@GHH################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6220:2160\t4\t*\t0\t0\t*\t*\t0\t0\tNACNNACGTGTGCTTGTNTTGCGGGCAGGCATGGGANNNANNNNNNNNNN\t##################################################\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6080:2161\t4\t*\t0\t0\t*\t*\t0\t0\tNGGNNCAGCTGTAGATGNAAGCAATTAGCTGCGCATNNNTNNNNNNNNNN\t#1=##2=DHHHHHJIJJ#3CGHHIIJIIJJJIIJJJ##############\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6107:2165\t4\t*\t0\t0\t*\t*\t0\t0\tNAANNTGGGTTAAATTTATGAGCTTAAGATAATGCGGNGCCCNNNNNNNA\t#1=##2=DHFHHHJJJJJJJJJJJJJJJIJJIJJJJJ#0?GH########\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6008:2166\t4\t*\t0\t0\t*\t*\t0\t0\tNATNNGGTCATTTGATTGTAAGATAGCTTATTTCATTCATTTNNNNNNNT\t#1:##222AADDHIFEFGHGIJGHDHGGICHIJB>FGGGIII########\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6164:2167\t4\t*\t0\t0\t*\t*\t0\t0\tNGGNNACTAAGTTTTAAAACCAACATATAAAAATAAAAAATTNNNNNNNT\t#1=##2=BFHHFHIJIIIFIIGIIIJIJIJJIIIGGIIJIJI########\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6028:2168\t4\t*\t0\t0\t*\t*\t0\t0\tAAACNTACCCTCTACGATGATATATGTCTCAACGCATTTATCNNNNNNNT\t@@@F#2=DDHHHGIIJHGHIIJHHIGHHHGGGHIIFEGGEGD########\tYT:Z:UU\tYF:Z:NS\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6130:2172\t16\tchr3L\t20041251\t28\t38M12S\t*\t0\t0\tGNTGNNTGAGTACGTGTTTGTTGGCAGGCGGCGAAGCTAGCTTCACAACA\t#######B;GHDGBHHIGGDBG>F;:EGDEHEGGGG@FF?DDFDD;A=@B\tAS:i:67\tXN:i:0\tXM:i:3\tXO:i:0\tXG:i:0\tNM:i:3\tMD:Z:1C2G0C32\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6218:2174\t16\tchr2R\t19964520\t28\t11S39M\t*\t0\t0\tANTGNNAATCTAGCTTTCAAACATCTTCGTCAAAATCCAATCCATAATTT\t######FECJGGGIGG<IIHFG@GE@FGF7<JIHG@FHGHFBDDFFD?@@\tAS:i:64\tXN:i:0\tXM:i:2\tXO:i:0\tXG:i:0\tNM:i:2\tMD:Z:9T3A25\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6240:2175\t16\tchr3R\t4582909\t2\t26S24M\t*\t0\t0\tATTTNNTGGCAAAAACAAAAGAAAGCAGTTTGCTTTGTGCATATTGCTTT\tCB80##JJJJJJIHIJJJJIJJIGIGIJIIJJIJJJIHGHHHFFFFFCCC\tAS:i:48\tXS:i:46\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:24\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6080:2181\t16\tchr2L\t22689743\t31\t50M\t*\t0\t0\tTTAGAAGGTAATAATTAACAGAGTCAAACGCTTTACTAAAATCAGTGTAG\tIJJIHGHHGJIGIIGHGGGGGIIHEIGHIIGJJIHIGHHHHFFFFFF@@@\tAS:i:100\tXS:i:92\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6184:2183\t16\tchr2L\t1650204\t44\t50M\t*\t0\t0\tTTATCAACTCTTTTTCCACTAAAATTAAGTGGTTATTGTTTGATTGGCTA\tIIEIHF?IGJJJJJIIHGJJJJJJJJJJJJJJJJJJJHHHHHFFFFFCCC\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6206:2186\t0\tchr3R\t5529976\t40\t50M\t*\t0\t0\tGACGCCAAAAGGCAGGCCCATTCCCATTCCCATTCCCATTCTCATTCCCA\t@C@FFFFFGHHFHIIIIJJIJGJIJIIJJJJGIJIIJAGIGGGIGHGFHG\tAS:i:100\tXS:i:42\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6022:2190\t16\tchr3R\t17296655\t42\t50M\t*\t0\t0\tGTAAGCATATCAATCTTCATAAATTCAATCTTAATTAGCCTAAGCCTAAG\tHDDCCEIIFAHEGG@EFHHEIJJJIGEIGGHBFC<?BFCBAHD8DDB@??\tAS:i:86\tXN:i:0\tXM:i:2\tXO:i:0\tXG:i:0\tNM:i:2\tMD:Z:32T12T4\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6130:2190\t16\tchr2R\t13123444\t44\t50M\t*\t0\t0\tAGCCAAGTGCAACAAATAACAACGAGTGTTGTTCTGTGGAAAAGATTTTC\tEIJGJJJJGJIIIIJJJIGJIHJJJJIJFIJJIJJJJHHHGHFFFFFCCC\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6163:2192\t0\tchr2L\t7371262\t44\t50M\t*\t0\t0\tAGGAGCCGCATTCTAAGCCCCTTTTGTTGGCCGGGCCAACAAGTAGCGGT\tCCCFFFFFGGHHHJJJJJIJJJJJJICHGIIIJIIBBFI@FHI@@CCBE#\tAS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6060:2193\t16\tchr3R\t9311800\t22\t26S24M\t*\t0\t0\tTTTTCATTTTTTTTCCGCACCAAGCTAGCTTCTAATTAAATAATGATTCA\tJJIHJJJGIIHIIGIGGF<IIJGJIGJJIHIIJIHGJHHHFHFFFDFCCB\tAS:i:48\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:24\tYT:Z:UU\n+HWI-ST1180:36:C0TU1ACXX:1:1101:6038:2194\t0\tchrX\t22218154\t1\t50M\t*\t0\t0\tGACCTATGGCTCACAGTTATGGGGCAATGCCAGCAACAGCAATATTGACA\t@@BDFFADFFDFAFHIJJJGIIIEFEFIBFGGGEHEEHIGIHGIIIGGGE\tAS:i:100\tXS:i:100\tXN:i:0\tXM:i:0\tXO:i:0\tXG:i:0\tNM:i:0\tMD:Z:50\tYT:Z:UU\n' |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/small_test_matrix.cool |
| b |
| Binary file test-data/small_test_matrix.cool has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/small_test_matrix.h5 |
| b |
| Binary file test-data/small_test_matrix.h5 has changed |
| b |
| diff -r 000000000000 -r 55b013e59018 test-data/small_test_matrix_result_sorted.bam |
| b |
| Binary file test-data/small_test_matrix_result_sorted.bam has changed |
