Previous changeset 5:44d6bef89faa (2020-12-11) Next changeset 7:fadd03fbc4f5 (2023-01-10) |
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 2a0943e78bdc8ebb13f181399206a9eea37ed78f" |
modified:
chicQualityControl.xml macros.xml test-data/cHi-C/background.txt test-data/cHi-C/chicQualityControl/histogram.png test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report test-data/cHi-C/chicQualityControl/sparsity.png 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_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_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/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_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/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.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_19093103_19093103_Tfap2d.txt 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/hicValidateLocations/overlap_smc3_statistics test-data/raw_qc_report |
added:
test-data/DpnII_10k.bed test-data/hicDifferentialTAD/accepted.txt test-data/hicDifferentialTAD/multiNone_domains.bed test-data/hicDifferentialTAD/rejected.txt test-data/hicHyperoptDetectLoops/hyperopt_results.txt test-data/hicHyperoptDetectLoops/loops.bedgraph 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/multiNone_domains.bed |
removed:
test-data/find_TADs/multiFDR_score.bedgraph |
b |
diff -r 44d6bef89faa -r db4a82804126 chicQualityControl.xml --- a/chicQualityControl.xml Fri Dec 11 21:31:00 2020 +0000 +++ b/chicQualityControl.xml Tue Mar 16 15:23:20 2021 +0000 |
[ |
@@ -1,4 +1,4 @@ -<tool id="hicexplorer_chicqualitycontrol" name="@BINARY@" version="@WRAPPER_VERSION@.0"> +<tool id="hicexplorer_chicqualitycontrol" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> <description>generates an estimate of the quality of each viewpoint</description> <macros> <token name="@BINARY@">chicQualityControl</token> @@ -13,7 +13,6 @@ #set $m = ' '.join([ '\'%s_matrix.%s\'' % ($counter, $matrix.ext) for $counter, $matrix in enumerate($matrix_h5_cooler_multiple) ]) @BINARY@ - --matrices $m --referencePoints '$referencePoints' --sparsity $sparsity @@ -26,18 +25,14 @@ && mv histogram.$image_file_format histogram && mv sparsity.$image_file_format sparsity - ]]></command> + ]]> </command> <inputs> <expand macro="matrix_h5_cooler_multiple_macro" /> + <param argument="--referencePoints" type="data" format='interval' label="Reference points" help="Bed file contains all reference points which should be used to build the background model." /> + <param argument="--sparsity" type="float" value="0.05" label="Sparsity threshold" help='Viewpoints with a sparsity less than given are considered of bad quality. If multiple matrices are given, the viewpoint is removed as soon as it is of bad quality in at least one matrix.' /> + <param argument="--fixateRange" type="integer" value="500000" label="Clip background distance" help='Fixate score of background model starting at distance x. E.g. all values greater 500kb are set to the value of the 500kb bin.' /> - <param argument="--referencePoints" type="data" format='interval' - label="Reference points" - help="Bed file contains all reference points which should be used to build the background model." /> - <param argument="--sparsity" type="float" value="0.05" label="Sparsity threshold" help='Viewpoints with a sparsity less than given are considered of bad quality. If multiple matrices are given, the viewpoint is removed as soon as it is of bad quality in at least one matrix.'/> - - <param argument="--fixateRange" type="integer" value="500000" label="Clip background distance" help='Fixate score of background model starting at distance x. E.g. all values greater 500kb are set to the value of the 500kb bin.'/> - - <param name='dpi' type='integer' value='300' label='DPI for image' help='Change the default resolution of the plot.' optional='true'/> + <param name='dpi' type='integer' value='300' min="100" max="2000" optional='true' label='DPI for image' help='Change the default resolution of 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> @@ -46,13 +41,13 @@ </inputs> <outputs> - <data name="raw_reference_points" from_work_dir="reference_points_raw_filter" format="interval" label="${tool.name} on [${on_string}]: Reference points raw"/> - <data name="rejected_reference_points" from_work_dir="reference_points_rejected_filter" format="interval" label="${tool.name} on [${on_string}]: Reference points rejected"/> - <data name="accepted_reference_points" from_work_dir="reference_points" format="interval" label="${tool.name} on [${on_string}]: Reference points accepted"/> - <data name="failed_reference_points" from_work_dir="reference_points_failed_reference_points" format="interval" label="${tool.name} on [${on_string}]: Reference points failed"/> - - <data name="report" from_work_dir="reference_points_report" format="txt" label="${tool.name} on [${on_string}]: Report"/> - + <data name="raw_reference_points" from_work_dir="reference_points_raw_filter" format="interval" label="${tool.name} on [${on_string}]: Reference points raw" /> + <data name="rejected_reference_points" from_work_dir="reference_points_rejected_filter" format="interval" label="${tool.name} on [${on_string}]: Reference points rejected" /> + <data name="accepted_reference_points" from_work_dir="reference_points" format="interval" label="${tool.name} on [${on_string}]: Reference points accepted" /> + <data name="failed_reference_points" from_work_dir="reference_points_failed_reference_points" format="interval" label="${tool.name} on [${on_string}]: Reference points failed" /> + + <data name="report" from_work_dir="reference_points_report" format="txt" label="${tool.name} on [${on_string}]: Report" /> + <data name="plot_histrogram" from_work_dir="histogram" format="png" label="${tool.name} on [${on_string}]: Histrogram plot"> <change_format> <when input="image_file_format" value="svg" format="svg" /> @@ -68,18 +63,18 @@ </outputs> <tests> <test> - <param name="matrix_h5_cooler_multiple" value="cHi-C/FL-E13-5_chr1.cool,cHi-C/MB-E10-5_chr1.cool"/> - <param name="referencePoints" value="cHi-C/referencePoints.bed"/> - <param name='sparsity' value='0.05'/> + <param name="matrix_h5_cooler_multiple" value="cHi-C/FL-E13-5_chr1.cool,cHi-C/MB-E10-5_chr1.cool" /> + <param name="referencePoints" value="cHi-C/referencePoints.bed" /> + <param name='sparsity' value='0.05' /> - <output name="accepted_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed" ftype="interval" compare="sim_size" delta='40000'/> - <output name="raw_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter" ftype="interval" compare="sim_size" delta='40000'/> - <output name="rejected_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed_rejected_filter" ftype="interval" compare="sim_size" delta='40000'/> - <output name="failed_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed_failed_reference_points" ftype="interval" compare="sim_size" delta='40000'/> - <output name="report" file="cHi-C/chicQualityControl/new_referencepoints.bed_report" ftype="txt" compare="sim_size" delta='40000'/> - - <output name="plot_histrogram" file="cHi-C/chicQualityControl/histogram.png" ftype="png" compare='sim_size' delta='40000'/> - <output name="plot_sparsity" file="cHi-C/chicQualityControl/sparsity.png" ftype="png" compare="sim_size" delta='40000'/> + <output name="accepted_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed" ftype="interval" /> + <output name="raw_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter" ftype="interval" /> + <output name="rejected_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed_rejected_filter" ftype="interval" /> + <output name="failed_reference_points" file="cHi-C/chicQualityControl/new_referencepoints.bed_failed_reference_points" ftype="interval" /> + <output name="report" file="cHi-C/chicQualityControl/new_referencepoints.bed_report" ftype="txt" /> + + <output name="plot_histrogram" file="cHi-C/chicQualityControl/histogram.png" ftype="png" compare='sim_size' /> + <output name="plot_sparsity" file="cHi-C/chicQualityControl/sparsity.png" ftype="png" compare="sim_size" /> </test> </tests> @@ -99,6 +94,6 @@ For more information about HiCExplorer please consider our documentation on readthedocs.io_ .. _readthedocs.io: http://hicexplorer.readthedocs.io/en/latest/index.html -]]></help> +]]> </help> <expand macro="citations" /> </tool> |
b |
diff -r 44d6bef89faa -r db4a82804126 macros.xml --- a/macros.xml Fri Dec 11 21:31:00 2020 +0000 +++ b/macros.xml Tue Mar 16 15:23:20 2021 +0000 |
b |
b'@@ -1,6 +1,7 @@\n <macros>\n <token name="@THREADS@">\\${GALAXY_SLOTS:-4}</token>\n- <token name="@WRAPPER_VERSION@">3.4.3</token>\n+ <token name="@TOOL_VERSION@">3.6</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@@ -9,7 +10,7 @@\n \n <xml name="requirements">\n <requirements>\n- <requirement type="package" version="@WRAPPER_VERSION@">hicexplorer</requirement>\n+ <requirement type="package" version="@TOOL_VERSION@">hicexplorer</requirement>\n <yield />\n </requirements>\n <version_command>@BINARY@ --version</version_command>\n@@ -28,7 +29,7 @@\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+ <param argument="--chromosomes" type="text" value="">\n <validator type="empty_field" />\n </param>\n </repeat>\n@@ -40,17 +41,45 @@\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" label="zMax for 3D plot"/> <!-- this should only be enabled when both or 3d is selected for param whatToShow -->\n+ <param argument="--zMax" name="zMax" type="float" optional="true" label="zMax for 3D plot" />\n+ <!-- this should only be enabled when both or 3d is selected for param whatToShow -->\n </xml>\n <xml name="use_range">\n- '..b' <param name="showOutputSettings" type="select" label="Show advanced output settings" >\n+ <conditional name="output">\n+ <param name="showOutputSettings" type="select" label="Show advanced output settings">\n <option value="no" selected="true">no</option>\n <option value="yes">yes</option>\n </param>\n <when value="no" />\n <when value="yes">\n <yield />\n- <param name="saveData" type="boolean" label="Save the data underlying the average 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+ <param name="saveData" type="boolean" label="Save the data underlying the average 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@@ -668,32 +643,33 @@\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+ <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+ <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+ <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+ <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+ <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+ <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+ <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="" optional="True"\n- label="Include spacer at the end of the track." help="Width of the spacer." />\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="" optional="True" label="Fontsize" />\n+ <param name="fontsize" type="integer" value="" min="5" optional="True" label="Fontsize" />\n </xml>\n </macros>\n' |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/DpnII_10k.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/DpnII_10k.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/cHi-C/background.txt --- a/test-data/cHi-C/background.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/background.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
b'@@ -1,1002 +1,1002 @@\n Relative position\tsize nbinom\tprob nbinom\tmax value\tmean value\n--500000\t58.254577634279\t0.998604709282\t1.333333333333\t0.000105073709\n--499000\t10.000013353187\t0.991925224088\t1.500000000000\t0.000105073709\n--498000\t72.266262784304\t0.998828265884\t1.200000000000\t0.000111077921\n--497000\t51.093422441771\t0.998183086351\t1.000000000000\t0.000120084239\n--496000\t86.575220693033\t0.998899865570\t0.800000000000\t0.000123086345\n--495000\t72.441590407550\t0.998655447638\t0.800000000000\t0.000126088451\n--494000\t75.085350270547\t0.998668414055\t1.000000000000\t0.000129090557\n--493000\t71.967411178924\t0.998612779641\t1.000000000000\t0.000129090557\n--492000\t77.026231982211\t0.998763649786\t1.200000000000\t0.000123086345\n--491000\t96.154018360868\t0.999129584825\t1.000000000000\t0.000108075815\n--490000\t70.641792331241\t0.998918479365\t1.400000000000\t0.000099069497\n--489000\t72.297114570842\t0.998971709245\t0.800000000000\t0.000096067391\n--488000\t55.276417890737\t0.998907322028\t0.800000000000\t0.000078054755\n--487000\t75.866231077639\t0.999020037562\t0.600000000000\t0.000096067391\n--486000\t77.908114872120\t0.999075493568\t0.600000000000\t0.000093065285\n--485000\t70.196050128375\t0.998940963837\t0.600000000000\t0.000096067391\n--484000\t48.306835304302\t0.998789125810\t0.600000000000\t0.000078054755\n--483000\t65.826727385050\t0.999115985283\t0.600000000000\t0.000075052649\n--482000\t10.000003651221\t0.996523342626\t0.400000000000\t0.000045031590\n--481000\t48.188933357556\t0.999179280048\t0.400000000000\t0.000051035802\n--480000\t10.000001173914\t0.997216871755\t0.400000000000\t0.000036025272\n--479000\t10.000002160096\t0.996985563716\t0.400000000000\t0.000039027378\n--478000\t61.980720096540\t0.999287603012\t0.800000000000\t0.000057040014\n--477000\t47.193502172887\t0.999138448161\t0.600000000000\t0.000054037908\n--476000\t75.435666576826\t0.999477638616\t0.600000000000\t0.000051035802\n--475000\t83.258498044933\t0.999385868055\t0.600000000000\t0.000066046332\n--474000\t64.452927063111\t0.999206823435\t0.600000000000\t0.000066046332\n--473000\t68.592799621533\t0.999390093904\t0.600000000000\t0.000054037908\n--472000\t48.567204011739\t0.999139405277\t0.600000000000\t0.000054037908\n--471000\t10.000004448331\t0.996292395667\t0.600000000000\t0.000048033696\n--470000\t10.000000920405\t0.995831238986\t1.400000000000\t0.000054037908\n--469000\t10.000003872489\t0.994909340544\t1.400000000000\t0.000066046332\n--468000\t63.250123985231\t0.999022818205\t1.400000000000\t0.000081056861\n--467000\t51.399551404579\t0.998558644000\t1.400000000000\t0.000096067391\n--466000\t64.883458129266\t0.998762977849\t1.000000000000\t0.000105073709\n--465000\t86.383451689662\t0.999139519880\t0.800000000000\t0.000096067391\n--464000\t64.657320565128\t0.998830168725\t1.000000000000\t0.000099069497\n--463000\t69.011442263596\t0.998889631783\t1.000000000000\t0.000099069497\n--462000\t120.365580780362\t0.999304923056\t1.000000000000\t0.000108075815\n--461000\t83.873478804403\t0.999085832019\t1.000000000000\t0.000099069497\n--460000\t76.791436688795\t0.998822607239\t0.800000000000\t0.000117082133\n--459000\t71.300309154477\t0.998707418591\t1.000000000000\t0.000120084239\n--458000\t70.551044686671\t0.998794143443\t0.600000000000\t0.000111077921\n--457000\t88.657625851365\t0.999084917164\t0.800000000000\t0.000105073709\n--456000\t66.985331452249\t0.998825498193\t0.800000000000\t0.000102071603\n--455000\t212.376735013798\t0.999710065148\t0.600000000000\t0.000078054755\n--454000\t62.703317289439\t0.999261443476\t0.600000000000\t0.000060042120\n--453000\t45.696967611307\t0.998932417121\t0.600000000000\t0.000063044226\n--452000\t82.313181248075\t0.999548168551\t0.600000000000\t0.000048033696\n--451000\t61.955802866608\t0.999249835457\t0.600000000000\t0.000060042120\n--450000\t71.163546816639\t0.999118429295\t1.000000000000\t0.000081056861\n--449000\t57.404577886000\t0.998868956077\t1.000000000000\t0.000084058967\n--448000\t78.889496868591\t0.999175114488\t1.000000000000\t0.000084058967\n--447000\t59.455705064746\t0.998872066360\t1.000000000000\t0.000087061073\n--446000\t69.521205032032\t0.998763823049\t1.000000000000\t0.000111077921\n--445000\t99.901425243691\t0.999325366218\t0.800000000000\t0.0000'..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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicQualityControl/histogram.png |
b |
Binary file test-data/cHi-C/chicQualityControl/histogram.png has changed |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter --- a/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_raw_filter Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Created with chicQualityControl version 3.4.3 +# Created with chicQualityControl version 3.6 # 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 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report --- a/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Created with chicQualityControl version 3.4.3 +# Created with chicQualityControl version 3.6 # QC report for matrices: 0_matrix.cool 1_matrix.cool #Sparsity threshold for rejection: sparsity <= 0.05 are rejected. |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicQualityControl/sparsity.png |
b |
Binary file test-data/cHi-C/chicQualityControl/sparsity.png has changed |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_output_significant.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,8 +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 0.00703769867936687721 7.81112575817000021061 5.59999999999999964473 -chr1 14296000 14298000 Eya1 673.0 -3000 0.05794947993999999963 0.10421572859864070004 3.78135593591500018817 39.00000000000000000000 -chr1 14314000 14316000 Eya1 673.0 14000 0.01515601783000000008 0.04850785315391703545 3.19033393500999995496 10.19999999999999928946 -chr1 14317000 14319000 Eya1 673.0 17000 0.01456166419000000031 0.03491443188205700654 3.51709033858399999772 9.80000000000000071054 -chr1 14480000 14488000 Eya1 673.0 184000 0.01129271916799999900 0.00000001048074382837 19.28508294646199772160 7.59999999999999875655 +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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_3_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_3_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3_target/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_target.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.4.3 +# 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 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_3_target/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_3_target/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_3_target/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.4.3 +# 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 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,8 +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 0.00284160000885902431 9.15400589712000112286 7.00000000000000000000 -chr1 14295000 14372000 Eya1 673.0 -1000 0.73997028231099992723 0.00004780944416038491 71.55022378473699973256 497.99999999999977262632 -chr1 14391000 14404000 Eya1 673.0 99000 0.01485884100899999803 0.00001657170147506548 12.71460890380599906280 10.00000000000000000000 -chr1 14405000 14431000 Eya1 673.0 126000 0.01485884100399999762 0.00000000019301882315 16.50018487636599928692 10.00000000000000532907 -chr1 14447000 14465000 Eya1 673.0 150000 0.01485884100799999760 0.00000000084501772246 20.98645213257099939597 10.00000000000000177636 +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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/FL-E13-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,10 +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 0.11635169910476195199 8.11832748109999968733 120.59999999999999431566 -chr1 19094000 19118000 Tfap2d 472.0 1000 0.38686440678100009194 0.03474409585293225522 32.83428528261499934615 182.60000000000005115908 -chr1 19124000 19141000 Tfap2d 472.0 33000 0.04661016949300000184 0.00000002462477854959 22.39995010446000023308 22.00000000000000000000 -chr1 19143000 19150000 Tfap2d 472.0 52000 0.01059322034000000079 0.01821075341789391011 7.00310519245599927274 5.00000000000000000000 -chr1 19153000 19185000 Tfap2d 472.0 65000 0.03177966102100000800 0.00000000020590662508 24.96572554191800108470 14.99999999999999467093 -chr1 19186000 19210000 Tfap2d 472.0 108000 0.03177966101800000498 0.00000007308534966111 29.45424687062300250773 15.00000000000000000000 -chr1 19215000 19251000 Tfap2d 472.0 137000 0.04237288135900001140 0.00000000012967626972 56.40252329690899557590 19.99999999999999644729 -chr1 19252000 19264000 Tfap2d 472.0 163000 0.01694915254200000249 0.00000130986798663191 24.34766306781100198009 8.00000000000000000000 +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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_14300280_14300280_Eya1_significant_interactions.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,5 +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 0.00000214655292485322 124.40376311550902244107 645.00000000000000000000 +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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_significant_interactions.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,6 +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 0.00087756598335464453 9.05078678760400023862 15.00000000000000000000 -chr1 19084000 19118000 Tfap2d 800.0 0 0.64874999999999971578 0.00000017949046560162 44.36507725070399033029 518.99999999999988631316 +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 0.00000195299526528636 14.62211731845800244400 8.00000000000000000000 +chr1 19258000 19274000 Tfap2d 800.0 169000 0.01000000000000000021 0.00000152506365280747 14.62211731845800244400 8.00000000000000000000 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_14300280_14300280_Eya1_target.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.4.3 +# 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 @@ -6,4 +6,4 @@ chr1 14274000 14279000 chr1 14290000 14439000 chr1 14444000 14467000 -chr1 14476000 14501000 +chr1 14484000 14501000 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d_target.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.4.3 +# 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 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt --- a/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicSignificantInteractions/output_5_target/FL-E13-5_MB-E10-5_chr1_chr1_4487435_4487435_Sox17_target.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Significant interactions result file of HiCExplorer's chicSignificantInteractions version 3.4.3 +# 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 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt --- a/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_14300280_14300280_Eya1.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
b"@@ -1,4 +1,4 @@\n-# Interaction file, created with HiCExplorer's chicViewpoint version 3.4.3\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@@ -42,11 +42,11 @@\n chr1\t14137000\t14138000\tEya1\t673.0\t-163000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14138000\t14139000\tEya1\t673.0\t-162000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14139000\t14140000\tEya1\t673.0\t-161000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t14140000\t14141000\tEya1\t673.0\t-160000\t0.000891530461\t0.012107544045\t4.242405017910\t0.600000000000\n-chr1\t14141000\t14142000\tEya1\t673.0\t-159000\t0.000891530461\t0.012107544045\t4.789812097144\t0.600000000000\n-chr1\t14142000\t14143000\tEya1\t673.0\t-158000\t0.000891530461\t0.012107544045\t4.303889149198\t0.600000000000\n-chr1\t14143000\t14144000\tEya1\t673.0\t-157000\t0.000891530461\t0.012107544045\t4.367181637306\t0.600000000000\n-chr1\t14144000\t14145000\tEya1\t673.0\t-156000\t0.000891530461\t0.012107544045\t5.120143967809\t0.600000000000\n+chr1\t14140000\t14141000\tEya1\t673.0\t-160000\t0.000891530461\t0.232516348110\t2.088887205761\t0.600000000000\n+chr1\t14141000\t14142000\tEya1\t673.0\t-159000\t0.000891530461\t0.232516348110\t2.274191716551\t0.600000000000\n+chr1\t14142000\t14143000\tEya1\t673.0\t-158000\t0.000891530461\t0.232516348110\t2.043476610792\t0.600000000000\n+chr1\t14143000\t14144000\tEya1\t673.0\t-157000\t0.000891530461\t0.232516348110\t2.303919713268\t0.600000000000\n+chr1\t14144000\t14145000\tEya1\t673.0\t-156000\t0.000891530461\t0.232516348110\t2.431032520312\t0.600000000000\n chr1\t14145000\t14146000\tEya1\t673.0\t-155000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14146000\t14147000\tEya1\t673.0\t-154000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14147000\t14148000\tEya1\t673.0\t-153000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n@@ -77,53 +77,53 @@\n chr1\t14172000\t14173000\tEya1\t673.0\t-128000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14173000\t14174000\tEya1\t673.0\t-127000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14174000\t14175000\tEya1\t673.0\t-126000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t14175000\t14176000\tEya1\t673.0\t-125000\t0.000297176820\t0.042850447268\t0.916568982282\t0.200000000000\n-chr1\t14176000\t14177000\tEya1\t673.0\t-124000\t0.000297176820\t0.042850447268\t0.908160092485\t0.200000000000\n-chr1\t14177000\t14178000\tEya1\t673.0\t-123000\t0.000297176820\t0.042850447268\t0.798302018335\t0.200000000000\n-chr1\t14178000\t14179000\tEya1\t673.0\t-122000\t0.000297176820\t0.042850447268\t0.925135047590\t0.200000000000\n-chr1\t14179000\t14180000\tEya1\t673.0\t-121000\t0.000297176820\t0.042850447268\t0.883834378206\t0.200000000000\n+chr1\t14175000\t14176000\tEya1\t673.0\t-125000\t0.000297176820\t0.378306706409\t0.499656661362\t0.200000000000\n+chr1\t14176000\t14177000\tEya1\t673.0\t-124000\t0.000297176820\t0.378306706409\t0.415222227347\t0.200000000000\n+chr1\t14177000\t14178000\tEya1\t673.0\t-123000\t0.000297176820\t0.378306706409\t0.393070172785\t0.200000000000\n+chr1\t14178000\t14179000\tEya1\t673.0\t-122000\t0.000297176820\t0.378306706409\t0.455520574435\t0.200000000000\n+chr1\t14179000\t14180000\tEya1\t673.0\t-121000\t0.000297176820\t0.378306706409\t0.450727149836\t0.200000000000\n chr1\t14180000\t14181000\tEya1\t673.0\t-120000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14181000\t14182000\tEya1\t673.0\t-119000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t14182000\t14183000\tEya1\t673.0\t-118000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t14183000\t14184000\tEya1\t673.0\t-117000\t0.000297176820\t0.042850447268\t0.860777829009\t0.200000000000\n-chr1\t14184000\t14185000\tEya1\t673.0\t-116000\t0.000297176820\t0.042850447268\t0.791915602137\t0.200000000000\n-chr1\t14185000\t14186000\tEya1\t673.0\t-115000\t0.000297176820\t0.04285"..b'14412\t0.800000000000\n-chr1\t14487000\t14488000\tEya1\t673.0\t187000\t0.001188707281\t0.000000000000\t2.140312436513\t0.800000000000\n-chr1\t14488000\t14489000\tEya1\t673.0\t188000\t0.000594353640\t0.000000000000\t1.058710697124\t0.400000000000\n-chr1\t14489000\t14490000\tEya1\t673.0\t189000\t0.000297176820\t0.000000000000\t0.575520059550\t0.200000000000\n-chr1\t14490000\t14491000\tEya1\t673.0\t190000\t0.000297176820\t0.000000000000\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+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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt --- a/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/FL-E13-5_chr1_chr1_4487435_4487435_Sox17.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
b"@@ -1,4 +1,4 @@\n-# Interaction file, created with HiCExplorer's chicViewpoint version 3.4.3\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@@ -195,75 +195,75 @@\n chr1\t4477000\t4478000\tSox17\t810.0\t-10000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t4478000\t4479000\tSox17\t810.0\t-9000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t4479000\t4480000\tSox17\t810.0\t-8000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t4480000\t4481000\tSox17\t810.0\t-7000\t0.002222222222\t0.000185972288\t0.779180117089\t1.800000000000\n-chr1\t4481000\t4482000\tSox17\t810.0\t-6000\t0.002222222222\t0.000185972288\t0.537170617614\t1.800000000000\n-chr1\t4482000\t4483000\tSox17\t810.0\t-5000\t0.002222222222\t0.000185972288\t0.379990303436\t1.800000000000\n-chr1\t4483000\t4484000\tSox17\t810.0\t-4000\t0.012098765432\t0.000000000000\t1.215347622436\t9.800000000000\n-chr1\t4484000\t4485000\tSox17\t810.0\t-3000\t0.032839506173\t0.000000000000\t1.523937459823\t26.600000000000\n-chr1\t4485000\t4486000\tSox17\t810.0\t-2000\t0.092592592593\t0.000000000000\t1.384128990547\t75.000000000000\n-chr1\t4486000\t4487000\tSox17\t810.0\t-1000\t0.111111111111\t0.000000000000\t1.453408818204\t90.000000000000\n-chr1\t4487000\t4488000\tSox17\t810.0\t0\t0.114567901235\t0.188793973612\t1.440149085516\t92.800000000000\n-chr1\t4488000\t4489000\tSox17\t810.0\t1000\t0.105432098765\t0.000000000000\t1.347376918585\t85.400000000000\n-chr1\t4489000\t4490000\tSox17\t810.0\t2000\t0.086913580247\t0.000000000000\t1.270443659967\t70.400000000000\n-chr1\t4490000\t4491000\tSox17\t810.0\t3000\t0.028395061728\t0.000000000000\t1.145359755892\t23.000000000000\n-chr1\t4491000\t4492000\tSox17\t810.0\t4000\t0.014320987654\t0.000000000000\t0.915431553855\t11.600000000000\n-chr1\t4492000\t4493000\tSox17\t810.0\t5000\t0.010864197531\t0.000000000000\t0.897089431163\t8.800000000000\n-chr1\t4493000\t4494000\tSox17\t810.0\t6000\t0.012345679012\t0.000000000000\t1.180011336066\t10.000000000000\n-chr1\t4494000\t4495000\tSox17\t810.0\t7000\t0.010123456790\t0.000000000000\t1.060081230757\t8.200000000000\n-chr1\t4495000\t4496000\tSox17\t810.0\t8000\t0.009382716049\t0.000000000000\t1.076973819704\t7.600000000000\n-chr1\t4496000\t4497000\tSox17\t810.0\t9000\t0.005432098765\t0.000000000000\t0.678705694908\t4.400000000000\n-chr1\t4497000\t4498000\tSox17\t810.0\t10000\t0.006666666667\t0.000000000000\t0.919910245827\t5.400000000000\n-chr1\t4498000\t4499000\tSox17\t810.0\t11000\t0.007407407407\t0.000000000000\t1.156776232338\t6.000000000000\n-chr1\t4499000\t4500000\tSox17\t810.0\t12000\t0.009876543210\t0.000000000000\t1.659037622278\t8.000000000000\n-chr1\t4500000\t4501000\tSox17\t810.0\t13000\t0.007654320988\t0.000000000000\t1.425181941894\t6.200000000000\n-chr1\t4501000\t4502000\tSox17\t810.0\t14000\t0.007654320988\t0.000000000000\t1.576778289436\t6.200000000000\n-chr1\t4502000\t4503000\tSox17\t810.0\t15000\t0.006666666667\t0.000000000000\t1.434537037015\t5.400000000000\n-chr1\t4503000\t4504000\tSox17\t810.0\t16000\t0.003950617284\t0.000000000000\t0.867467792926\t3.200000000000\n-chr1\t4504000\t4505000\tSox17\t810.0\t17000\t0.001975308642\t0.000000000000\t0.470317599024\t1.600000000000\n-chr1\t4505000\t4506000\tSox17\t810.0\t18000\t0.001728395062\t0.000000000000\t0.423640567251\t1.400000000000\n-chr1\t4506000\t4507000\tSox17\t810.0\t19000\t0.003456790123\t0.000000000000\t0.869022688092\t2.800000000000\n-chr1\t4507000\t4508000\tSox17\t810.0\t20000\t0.005185185185\t0.000000000000\t1.383960410629\t4.200000000000\n-chr1\t4508000\t4509000\tSox17\t810.0\t21000\t0.005432098765\t0.000000000000\t1.490469013972\t4.400000000000\n-chr1\t4509000\t4510000\tSox17\t810.0\t22000\t0.006419753086\t0.000000000000\t1.835550680659\t5.200000000000\n-chr1\t4510000\t4511000\tSox17\t810.0\t23000\t0.007160493827\t0.000000000000\t2.286823503223\t5.800000000000\n-chr1\t4511000\t4512000\tSox17\t810.0\t24000\t0.005679012346\t0.000000000000\t1.847340012418\t4.600000000000\n-chr1\t4512000\t4513000\tSox17\t810.0\t25000\t0.005679012346\t0.000000000000\t1.948173195509\t4.6000"..b'0.000493827160\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\t0.000000000000\t0.401203854492\t0.200000000000\n-chr1\t4672000\t4673000\tSox17\t810.0\t185000\t0.000246913580\t0.000000000000\t0.395417260391\t0.200000000000\n-chr1\t4673000\t4674000\tSox17\t810.0\t186000\t0.000246913580\t0.000000000000\t0.437482925987\t0.200000000000\n-chr1\t4674000\t4675000\tSox17\t810.0\t187000\t0.000246913580\t0.000000000000\t0.444577243757\t0.200000000000\n-chr1\t4675000\t4676000\tSox17\t810.0\t188000\t0.000493827160\t0.000000000000\t0.879644813784\t0.400000000000\n-chr1\t4676000\t4677000\tSox17\t810.0\t189000\t0.000246913580\t0.000000000000\t0.478179012441\t0.200000000000\n-chr1\t4677000\t4678000\tSox17\t810.0\t190000\t0.000246913580\t0.000000000000\t0.480975380957\t0.200000000000\n-chr1\t4678000\t4679000\tSox17\t810.0\t191000\t0.000740740741\t0.000000000000\t1.370779835192\t0.600000000000\n-chr1\t4679000\t4680000\tSox17\t810.0\t192000\t0.000740740741\t0.000000000000\t1.355716320410\t0.600000000000\n-chr1\t4680000\t4681000\tSox17\t810.0\t193000\t0.000740740741\t0.000000000000\t1.468692681340\t0.600000000000\n-chr1\t4681000\t4682000\tSox17\t810.0\t194000\t0.000740740741\t0.000000000000\t1.426244915656\t0.600000000000\n-chr1\t4682000\t4683000\tSox17\t810.0\t195000\t0.000740740741\t0.000000000000\t1.513744604449\t0.600000000000\n-chr1\t4683000\t4684000\tSox17\t810.0\t196000\t0.000493827160\t0.000000000000\t1.009163069632\t0.400000000000\n-chr1\t4684000\t4685000\tSox17\t810.0\t197000\t0.000493827160\t0.000000000000\t0.934622615061\t0.400000000000\n-chr1\t4685000\t4686000\tSox17\t810.0\t198000\t0.000246913580\t0.000000000000\t0.403170540070\t0.200000000000\n-chr1\t4686000\t4687000\tSox17\t810.0\t199000\t0.000308641975\t0.000000000000\t0.538264332961\t0.250000000000\n-chr1\t4687000\t4688000\tSox17\t810.0\t200000\t0.000411522634\t0.000000000000\t0.699377466512\t0.333333333333\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 44d6bef89faa -r db4a82804126 test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt --- a/test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/cHi-C/chicViewpoint/output_3/MB-E10-5_chr1_chr1_19093103_19093103_Tfap2d.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
b"@@ -1,4 +1,4 @@\n-# Interaction file, created with HiCExplorer's chicViewpoint version 3.4.3\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@@ -95,18 +95,18 @@\n chr1\t18983000\t18984000\tTfap2d\t800.0\t-110000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t18984000\t18985000\tTfap2d\t800.0\t-109000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t18985000\t18986000\tTfap2d\t800.0\t-108000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t18986000\t18987000\tTfap2d\t800.0\t-107000\t0.000500000000\t0.023000625561\t1.387914584417\t0.400000000000\n-chr1\t18987000\t18988000\tTfap2d\t800.0\t-106000\t0.000500000000\t0.023000625561\t1.682320705695\t0.400000000000\n-chr1\t18988000\t18989000\tTfap2d\t800.0\t-105000\t0.000500000000\t0.023000625561\t1.734893228113\t0.400000000000\n-chr1\t18989000\t18990000\tTfap2d\t800.0\t-104000\t0.000500000000\t0.023000625561\t2.081871876625\t0.400000000000\n-chr1\t18990000\t18991000\tTfap2d\t800.0\t-103000\t0.000500000000\t0.023000625561\t2.281503428260\t0.400000000000\n+chr1\t18986000\t18987000\tTfap2d\t800.0\t-107000\t0.000500000000\t0.299067125362\t0.829824948245\t0.400000000000\n+chr1\t18987000\t18988000\tTfap2d\t800.0\t-106000\t0.000500000000\t0.299067125362\t0.946680867864\t0.400000000000\n+chr1\t18988000\t18989000\tTfap2d\t800.0\t-105000\t0.000500000000\t0.299067125362\t0.915248104257\t0.400000000000\n+chr1\t18989000\t18990000\tTfap2d\t800.0\t-104000\t0.000500000000\t0.299067125362\t1.134907650442\t0.400000000000\n+chr1\t18990000\t18991000\tTfap2d\t800.0\t-103000\t0.000500000000\t0.299067125362\t1.243734411173\t0.400000000000\n chr1\t18991000\t18992000\tTfap2d\t800.0\t-102000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t18992000\t18993000\tTfap2d\t800.0\t-101000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t18993000\t18994000\tTfap2d\t800.0\t-100000\t0.000250000000\t0.042850447268\t1.028084877240\t0.200000000000\n-chr1\t18994000\t18995000\tTfap2d\t800.0\t-99000\t0.000250000000\t0.042850447268\t0.946305397749\t0.200000000000\n-chr1\t18995000\t18996000\tTfap2d\t800.0\t-98000\t0.000250000000\t0.042850447268\t0.885902925125\t0.200000000000\n-chr1\t18996000\t18997000\tTfap2d\t800.0\t-97000\t0.000250000000\t0.042850447268\t0.832748749263\t0.200000000000\n-chr1\t18997000\t18998000\tTfap2d\t800.0\t-96000\t0.000250000000\t0.042850447268\t0.763989677803\t0.200000000000\n+chr1\t18993000\t18994000\tTfap2d\t800.0\t-100000\t0.000250000000\t0.378306706409\t0.614685146810\t0.200000000000\n+chr1\t18994000\t18995000\tTfap2d\t800.0\t-99000\t0.000250000000\t0.378306706409\t0.632353235816\t0.200000000000\n+chr1\t18995000\t18996000\tTfap2d\t800.0\t-98000\t0.000250000000\t0.378306706409\t0.591990263285\t0.200000000000\n+chr1\t18996000\t18997000\tTfap2d\t800.0\t-97000\t0.000250000000\t0.378306706409\t0.497894968781\t0.200000000000\n+chr1\t18997000\t18998000\tTfap2d\t800.0\t-96000\t0.000250000000\t0.378306706409\t0.470219209914\t0.200000000000\n chr1\t18998000\t18999000\tTfap2d\t800.0\t-95000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t18999000\t19000000\tTfap2d\t800.0\t-94000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t19000000\t19001000\tTfap2d\t800.0\t-93000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n@@ -125,11 +125,11 @@\n chr1\t19013000\t19014000\tTfap2d\t800.0\t-80000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t19014000\t19015000\tTfap2d\t800.0\t-79000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n chr1\t19015000\t19016000\tTfap2d\t800.0\t-78000\t0.000000000000\t1.000000000000\t0.000000000000\t0.000000000000\n-chr1\t19016000\t19017000\tTfap2d\t800.0\t-77000\t0.000250000000\t0.042850447268\t0.578297742704\t0.200000000000\n-chr1\t19017000\t19018000\tTfap2d\t800.0\t-76000\t0.000250000000\t0.042850447268\t0.551489237898\t0.200000000000\n-chr1\t19018000\t19019000\tTfap2d\t800.0\t-75000\t0.000250000000\t0.042850447268\t0.603441123004\t0.200000000000\n-chr1\t1901"..b'0\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\t0.000000000000\t0.447714381549\t0.200000000000\n-chr1\t19276000\t19277000\tTfap2d\t800.0\t183000\t0.000250000000\t0.000000000000\t0.433723307028\t0.200000000000\n-chr1\t19277000\t19278000\tTfap2d\t800.0\t184000\t0.000750000000\t0.000000000000\t1.218656708021\t0.600000000000\n-chr1\t19278000\t19279000\tTfap2d\t800.0\t185000\t0.000750000000\t0.000000000000\t1.201079928437\t0.600000000000\n-chr1\t19279000\t19280000\tTfap2d\t800.0\t186000\t0.000750000000\t0.000000000000\t1.328854387687\t0.600000000000\n-chr1\t19280000\t19281000\tTfap2d\t800.0\t187000\t0.000500000000\t0.000000000000\t0.900268918608\t0.400000000000\n-chr1\t19281000\t19282000\tTfap2d\t800.0\t188000\t0.000500000000\t0.000000000000\t0.890640373956\t0.400000000000\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\t0.000000000000\t0.486987573219\t0.200000000000\n-chr1\t19284000\t19285000\tTfap2d\t800.0\t191000\t0.000250000000\t0.000000000000\t0.462638194377\t0.200000000000\n-chr1\t19285000\t19286000\tTfap2d\t800.0\t192000\t0.000250000000\t0.000000000000\t0.457554258138\t0.200000000000\n-chr1\t19286000\t19287000\tTfap2d\t800.0\t193000\t0.000500000000\t0.000000000000\t0.991367559904\t0.400000000000\n-chr1\t19287000\t19288000\tTfap2d\t800.0\t194000\t0.000500000000\t0.000000000000\t0.962715318068\t0.400000000000\n-chr1\t19288000\t19289000\tTfap2d\t800.0\t195000\t0.000250000000\t0.000000000000\t0.510888804001\t0.200000000000\n-chr1\t19289000\t19290000\tTfap2d\t800.0\t196000\t0.000250000000\t0.000000000000\t0.510888804001\t0.200000000000\n-chr1\t19290000\t19291000\tTfap2d\t800.0\t197000\t0.000250000000\t0.000000000000\t0.473152698875\t0.200000000000\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 44d6bef89faa -r db4a82804126 test-data/find_TADs/multiFDR_score.bedgraph --- a/test-data/find_TADs/multiFDR_score.bedgraph Fri Dec 11 21:31:00 2020 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
b |
b'@@ -1,24097 +0,0 @@\n-chr2L\t2500\t7500\t-0.245086500000\n-chr2L\t7500\t12500\t-0.231015500000\n-chr2L\t12500\t17500\t0.248282500000\n-chr2L\t17500\t22500\t0.222277500000\n-chr2L\t22500\t27500\t0.285627500000\n-chr2L\t27500\t32500\t0.003759500000\n-chr2L\t32500\t37500\t0.390073000000\n-chr2L\t37500\t42500\t0.210737500000\n-chr2L\t42500\t47500\t0.220971500000\n-chr2L\t47500\t52500\t0.115526500000\n-chr2L\t52500\t57500\t0.220971500000\n-chr2L\t57500\t62500\t0.220971500000\n-chr2L\t62500\t67500\t0.153475000000\n-chr2L\t67500\t72500\t-0.212048000000\n-chr2L\t72500\t77500\t-0.145684500000\n-chr2L\t77500\t82500\t-0.145684500000\n-chr2L\t82500\t87500\t0.186132000000\n-chr2L\t87500\t92500\t0.177488000000\n-chr2L\t92500\t97500\t0.442941000000\n-chr2L\t97500\t102500\t0.024936000000\n-chr2L\t102500\t107500\t-0.145684500000\n-chr2L\t107500\t112500\t-0.151675000000\n-chr2L\t112500\t117500\t0.161949000000\n-chr2L\t117500\t122500\t0.161949000000\n-chr2L\t122500\t127500\t-0.079542500000\n-chr2L\t127500\t132500\t0.116894000000\n-chr2L\t132500\t137500\t0.116894000000\n-chr2L\t137500\t142500\t0.136150000000\n-chr2L\t142500\t147500\t0.487624500000\n-chr2L\t147500\t152500\t0.146384000000\n-chr2L\t152500\t157500\t-0.129681500000\n-chr2L\t157500\t162500\t-0.129681500000\n-chr2L\t162500\t167500\t-0.085311500000\n-chr2L\t167500\t172500\t0.156180000000\n-chr2L\t172500\t177500\t0.421633000000\n-chr2L\t177500\t182500\t0.190754000000\n-chr2L\t182500\t187500\t0.387190000000\n-chr2L\t187500\t192500\t0.320826500000\n-chr2L\t192500\t197500\t-0.212048000000\n-chr2L\t197500\t202500\t-0.041427000000\n-chr2L\t202500\t207500\t-0.151675000000\n-chr2L\t207500\t212500\t0.089816500000\n-chr2L\t212500\t217500\t0.311779000000\n-chr2L\t217500\t222500\t0.222321500000\n-chr2L\t222500\t227500\t0.222321500000\n-chr2L\t227500\t232500\t0.222321500000\n-chr2L\t232500\t237500\t0.161949000000\n-chr2L\t237500\t242500\t-0.079542500000\n-chr2L\t242500\t247500\t-0.139915500000\n-chr2L\t247500\t252500\t-0.065328000000\n-chr2L\t252500\t257500\t0.191481000000\n-chr2L\t257500\t262500\t0.191481000000\n-chr2L\t262500\t267500\t0.453490500000\n-chr2L\t267500\t272500\t0.282870000000\n-chr2L\t272500\t277500\t0.136150000000\n-chr2L\t277500\t282500\t-0.139915500000\n-chr2L\t282500\t287500\t0.116894000000\n-chr2L\t287500\t292500\t0.191481000000\n-chr2L\t292500\t297500\t-0.137460500000\n-chr2L\t297500\t302500\t-0.137460500000\n-chr2L\t302500\t307500\t0.376157500000\n-chr2L\t307500\t312500\t0.376157500000\n-chr2L\t312500\t317500\t0.024936000000\n-chr2L\t317500\t322500\t0.281745000000\n-chr2L\t322500\t327500\t0.376578000000\n-chr2L\t327500\t332500\t-0.145684500000\n-chr2L\t332500\t337500\t-0.145684500000\n-chr2L\t337500\t342500\t-0.212048000000\n-chr2L\t342500\t347500\t-0.212048000000\n-chr2L\t347500\t352500\t-0.129681500000\n-chr2L\t352500\t357500\t-0.129681500000\n-chr2L\t357500\t362500\t-0.129681500000\n-chr2L\t362500\t367500\t-0.129681500000\n-chr2L\t367500\t372500\t0.044761500000\n-chr2L\t372500\t377500\t0.044761500000\n-chr2L\t377500\t382500\t0.044761500000\n-chr2L\t382500\t387500\t0.320826500000\n-chr2L\t387500\t392500\t0.064018000000\n-chr2L\t392500\t397500\t0.064018000000\n-chr2L\t397500\t402500\t-0.145684500000\n-chr2L\t402500\t407500\t0.024936000000\n-chr2L\t407500\t412500\t0.467966500000\n-chr2L\t412500\t417500\t0.202513500000\n-chr2L\t417500\t422500\t0.202513500000\n-chr2L\t422500\t427500\t0.390073000000\n-chr2L\t427500\t432500\t0.279825000000\n-chr2L\t432500\t437500\t0.521316000000\n-chr2L\t437500\t442500\t0.089816500000\n-chr2L\t442500\t447500\t-0.151675000000\n-chr2L\t447500\t452500\t0.044761500000\n-chr2L\t452500\t457500\t0.044761500000\n-chr2L\t457500\t462500\t-0.151675000000\n-chr2L\t462500\t467500\t0.173118500000\n-chr2L\t467500\t472500\t0.173118500000\n-chr2L\t472500\t477500\t0.102247500000\n-chr2L\t477500\t482500\t0.320826500000\n-chr2L\t482500\t487500\t0.320826500000\n-chr2L\t487500\t492500\t0.575879000000\n-chr2L\t492500\t497500\t-0.212048000000\n-chr2L\t497500\t502500\t-0.212048000000\n-chr2L\t502500\t507500\t-0.041427000000\n-chr2L\t507500\t512500\t-0.212048000000\n-chr2L\t512500\t517500\t-0.034517500000\n-chr2L\t517500\t522500\t-0.123974500000\n-chr2L\t522500\t527500\t-0.212048000000\n-chr2L\t527500\t532500\t-0.212048000000\n-chr2L\t532500\t537500\t-0.212048000000\n-chr2L\t537500\t542500\t-0.212048000000\n-chr2L\t542500\t547500\t-0.212048000000\n-chr2L\t547500\t552500\t0.044761500000\n-chr2L\t552500\t55750'..b'X\t21927500\t21932500\t-0.123078500000\n-chrX\t21932500\t21937500\t-0.123078500000\n-chrX\t21937500\t21942500\t-0.123078500000\n-chrX\t21942500\t21947500\t-0.123078500000\n-chrX\t21947500\t21952500\t-0.123078500000\n-chrX\t21952500\t21957500\t-0.123078500000\n-chrX\t21957500\t21962500\t-0.123078500000\n-chrX\t21962500\t21967500\t0.417830000000\n-chrX\t21967500\t21972500\t0.417830000000\n-chrX\t21972500\t21977500\t0.417830000000\n-chrX\t21977500\t21982500\t-0.123078500000\n-chrX\t21982500\t21987500\t-0.123078500000\n-chrX\t21987500\t21992500\t-0.123078500000\n-chrX\t21992500\t21997500\t-0.123078500000\n-chrX\t21997500\t22002500\t-0.123078500000\n-chrX\t22002500\t22007500\t-0.123078500000\n-chrX\t22007500\t22012500\t-0.123078500000\n-chrX\t22012500\t22017500\t-0.123078500000\n-chrX\t22017500\t22022500\t-0.123078500000\n-chrX\t22022500\t22027500\t-0.123078500000\n-chrX\t22027500\t22032500\t-0.123078500000\n-chrX\t22032500\t22037500\t-0.123078500000\n-chrX\t22037500\t22042500\t0.314729500000\n-chrX\t22042500\t22047500\t0.422962000000\n-chrX\t22047500\t22052500\t0.534135000000\n-chrX\t22052500\t22057500\t0.566234000000\n-chrX\t22057500\t22062500\t0.870595500000\n-chrX\t22062500\t22067500\t-0.011905500000\n-chrX\t22067500\t22072500\t-0.123078500000\n-chrX\t22072500\t22077500\t-0.123078500000\n-chrX\t22077500\t22082500\t-0.123078500000\n-chrX\t22082500\t22087500\t-0.123078500000\n-chrX\t22087500\t22092500\t-0.123078500000\n-chrX\t22092500\t22097500\t-0.123078500000\n-chrX\t22097500\t22102500\t-0.123078500000\n-chrX\t22102500\t22107500\t-0.123078500000\n-chrX\t22107500\t22112500\t0.181282500000\n-chrX\t22112500\t22117500\t-0.123078500000\n-chrX\t22117500\t22122500\t-0.123078500000\n-chrX\t22122500\t22127500\t-0.123078500000\n-chrX\t22127500\t22132500\t-0.123078500000\n-chrX\t22132500\t22137500\t-0.123078500000\n-chrX\t22137500\t22142500\t0.026382500000\n-chrX\t22142500\t22147500\t0.026382500000\n-chrX\t22147500\t22152500\t0.026382500000\n-chrX\t22152500\t22157500\t0.026382500000\n-chrX\t22157500\t22162500\t-0.123078500000\n-chrX\t22162500\t22167500\t0.328783000000\n-chrX\t22167500\t22172500\t0.024421500000\n-chrX\t22172500\t22177500\t-0.123078500000\n-chrX\t22177500\t22182500\t-0.123078500000\n-chrX\t22182500\t22187500\t-0.123078500000\n-chrX\t22187500\t22192500\t-0.123078500000\n-chrX\t22192500\t22197500\t0.032313000000\n-chrX\t22197500\t22202500\t-0.123078500000\n-chrX\t22202500\t22207500\t-0.123078500000\n-chrX\t22207500\t22212500\t-0.123078500000\n-chrX\t22212500\t22217500\t-0.123078500000\n-chrX\t22217500\t22222500\t-0.123078500000\n-chrX\t22222500\t22227500\t-0.123078500000\n-chrX\t22227500\t22232500\t-0.123078500000\n-chrX\t22232500\t22237500\t0.026382500000\n-chrX\t22237500\t22242500\t0.026382500000\n-chrX\t22242500\t22247500\t0.026382500000\n-chrX\t22247500\t22252500\t0.026382500000\n-chrX\t22252500\t22257500\t-0.123078500000\n-chrX\t22257500\t22262500\t-0.123078500000\n-chrX\t22262500\t22267500\t-0.123078500000\n-chrX\t22267500\t22272500\t-0.123078500000\n-chrX\t22272500\t22277500\t-0.123078500000\n-chrX\t22277500\t22282500\t-0.123078500000\n-chrX\t22282500\t22287500\t-0.123078500000\n-chrX\t22287500\t22292500\t-0.123078500000\n-chrX\t22292500\t22297500\t-0.123078500000\n-chrX\t22297500\t22302500\t0.024421500000\n-chrX\t22302500\t22307500\t0.177868500000\n-chrX\t22307500\t22312500\t0.030368500000\n-chrX\t22312500\t22317500\t0.030368500000\n-chrX\t22317500\t22322500\t0.554135000000\n-chrX\t22322500\t22327500\t0.998827500000\n-chrX\t22327500\t22332500\t0.998827500000\n-chrX\t22332500\t22337500\t0.400688000000\n-chrX\t22337500\t22342500\t-0.123078500000\n-chrX\t22342500\t22347500\t-0.123078500000\n-chrX\t22347500\t22352500\t-0.123078500000\n-chrX\t22352500\t22357500\t-0.123078500000\n-chrX\t22357500\t22362500\t-0.123078500000\n-chrX\t22362500\t22367500\t-0.123078500000\n-chrX\t22367500\t22372500\t-0.123078500000\n-chrX\t22372500\t22377500\t-0.123078500000\n-chrX\t22377500\t22382500\t-0.123078500000\n-chrX\t22382500\t22387500\t-0.123078500000\n-chrX\t22387500\t22392500\t-0.123078500000\n-chrX\t22392500\t22397500\t-0.124675500000\n-chrX\t22397500\t22402500\t-0.126415000000\n-chrX\t22402500\t22407500\t-0.128395000000\n-chrX\t22407500\t22412500\t-0.135287500000\n-chrX\t22412500\t22417500\t-0.144761000000\n-chrX\t22417500\t22421413\t0.000000000000\n-chrXHet\t2500\t202056\t0.000000000000\n-chrYHet\t2500\t346019\t0.000000000000\n' |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicDifferentialTAD/accepted.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicDifferentialTAD/accepted.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -0,0 +1,4 @@ +# Created with HiCExplorer's hicDifferentialTAD version 3.6 +# 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 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicDifferentialTAD/multiNone_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicDifferentialTAD/multiNone_domains.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicDifferentialTAD/rejected.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicDifferentialTAD/rejected.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
b"@@ -0,0 +1,1402 @@\n+# Created with HiCExplorer's hicDifferentialTAD version 3.6\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\n+chr3L\t165000\t260000\tID_0.01_1\t-0.10316675\t.\tnan\t1.0\t1.0\n+chr3L\t260000\t335000\tID_0.01_2\t-0.026655\t.\t1.0\t1.0\t1.0\n+chr3L\t335000\t360000\tID_0.01_3\t-0.030848\t.\t1.0\t1.0\t1.0\n+chr3L\t360000\t485000\tID_0.01_4\t-0.0580815\t.\t1.0\t1.0\t1.0\n+chr3L\t485000\t525000\tID_0.01_5\t-0.07169775\t.\t1.0\t1.0\t1.0\n+chr3L\t525000\t680000\tID_0.01_6\t-0.1060405\t.\t1.0\t1.0\t1.0\n+chr3L\t680000\t705000\tID_0.01_7\t-0.0148855\t.\t1.0\t1.0\t1.0\n+chr3L\t705000\t740000\tID_0.01_8\t0.002784\t.\t1.0\t1.0\t1.0\n+chr3L\t740000\t870000\tID_0.01_9\t0.00949975\t.\t1.0\t1.0\t1.0\n+chr3L\t870000\t1010000\tID_0.01_10\t-0.09546975\t.\t1.0\t1.0\t1.0\n+chr3L\t1010000\t1040000\tID_0.01_11\t-0.05182175\t.\t1.0\t1.0\t1.0\n+chr3L\t1040000\t1110000\tID_0.01_12\t-0.05874875\t.\t1.0\t1.0\t1.0\n+chr3L\t1110000\t1210000\tID_0.01_13\t-0.048349\t.\t1.0\t1.0\t1.0\n+chr3L\t1210000\t1245000\tID_0.01_14\t-0.0567565\t.\t1.0\t1.0\t1.0\n+chr3L\t1245000\t1300000\tID_0.01_15\t-0.0641435\t.\t1.0\t1.0\t1.0\n+chr3L\t1300000\t1465000\tID_0.01_16\t-0.091379\t.\t1.0\t1.0\t1.0\n+chr3L\t1465000\t1535000\tID_0.01_17\t-0.01307225\t.\t1.0\t1.0\t1.0\n+chr3L\t1535000\t1580000\tID_0.01_18\t-0.08711525\t.\t1.0\t1.0\t1.0\n+chr3L\t1580000\t1640000\tID_0.01_19\t-0.08235875\t.\t1.0\t1.0\t1.0\n+chr3L\t1640000\t1670000\tID_0.01_20\t-0.0628755\t.\t1.0\t1.0\t1.0\n+chr3L\t1670000\t1735000\tID_0.01_21\t-0.037945\t.\t1.0\t1.0\t1.0\n+chr3L\t1735000\t1815000\tID_0.01_22\t-0.050313\t.\t1.0\t1.0\t1.0\n+chr3L\t1815000\t1850000\tID_0.01_23\t-0.01723525\t.\t1.0\t1.0\t1.0\n+chr3L\t1850000\t1925000\tID_0.01_24\t-0.0259975\t.\t1.0\t1.0\t1.0\n+chr3L\t1925000\t2155000\tID_0.01_25\t8.325e-05\t.\t1.0\t1.0\t1.0\n+chr3L\t2155000\t2260000\tID_0.01_26\t-0.0401965\t.\t1.0\t1.0\t1.0\n+chr3L\t2260000\t2390000\tID_0.01_27\t-0.07518575\t.\t1.0\t1.0\t1.0\n+chr3L\t2390000\t2460000\tID_0.01_28\t-0.072071\t.\t1.0\t1.0\t1.0\n+chr3L\t2460000\t2560000\tID_0.01_29\t-0.09132325\t.\t1.0\t1.0\t1.0\n+chr3L\t2560000\t2600000\tID_0.01_30\t-0.09179675\t.\t1.0\t1.0\t1.0\n+chr3L\t2600000\t2740000\tID_0.01_31\t-0.0934855\t.\t1.0\t1.0\t1.0\n+chr3L\t2740000\t2885000\tID_0.01_32\t-0.08927875\t.\t1.0\t1.0\t1.0\n+chr3L\t2885000\t2945000\tID_0.01_33\t-0.08972575\t.\t1.0\t1.0\t1.0\n+chr3L\t2945000\t2960000\tID_0.01_34\t0.029899\t.\t1.0\t1.0\t1.0\n+chr3L\t2960000\t3045000\tID_0.01_35\t0.0356865\t.\t1.0\t1.0\t1.0\n+chr3L\t3045000\t3135000\tID_0.01_36\t-0.00466875\t.\t1.0\t1.0\t1.0\n+chr3L\t3135000\t3220000\tID_0.01_37\t0.055702\t.\t1.0\t1.0\t1.0\n+chr3L\t3220000\t3255000\tID_0.01_38\t-0.059463\t.\t1.0\t1.0\t1.0\n+chr3L\t3255000\t3315000\tID_0.01_39\t-0.045796\t.\t1.0\t1.0\t1.0\n+chr3L\t3315000\t3345000\tID_0.01_40\t-0.05499875\t.\t1.0\t1.0\t1.0\n+chr3L\t3345000\t3475000\tID_0.01_41\t-0.04234075\t.\t1.0\t1.0\t1.0\n+chr3L\t3475000\t3515000\tID_0.01_42\t-0.05097675\t.\t1.0\t1.0\t1.0\n+chr3L\t3515000\t3545000\tID_0.01_43\t-0.012488\t.\t1.0\t1.0\t1.0\n+chr3L\t3545000\t3615000\tID_0.01_44\t0.02457925\t.\t1.0\t1.0\t1.0\n+chr3L\t3615000\t3670000\tID_0.01_45\t0.019683\t.\t1.0\t1.0\t1.0\n+chr3L\t3670000\t3765000\tID_0.01_46\t0.09945325\t.\t1.0\t1.0\t1.0\n+chr3L\t3765000\t3785000\tID_0.01_47\t-0.047454\t.\t1.0\t1.0\t1.0\n+chr3L\t3785000\t3825000\tID_0.01_48\t-0.041084\t.\t1.0\t1.0\t1.0\n+chr3L\t3825000\t3900000\tID_0.01_49\t-0.06101175\t.\t1.0\t1.0\t1.0\n+chr3L\t3900000\t4000000\tID_0.01_50\t-0.0684535\t.\t1.0\t1.0\t1.0\n+chr3L\t4000000\t4120000\tID_0.01_51\t-0.03007875\t.\t1.0\t1.0\t1.0\n+chr3L\t4120000\t4165000\tID_0.01_52\t-0.0807515\t.\t1.0\t1.0\t1.0\n+chr3L\t4165000\t4200000\tID_0.01_53\t-0.088488\t.\t1.0\t1.0\t1.0\n+chr3L\t4200000\t4220000\tID_0.01_54\t-0.098724\t.\t1.0\t1.0\t1.0\n+chr3L\t4220000\t4270000\tID_0.01_55\t-0.088911\t.\t1.0\t1.0\t1.0\n+chr3L\t4270000\t4365000\tID_0.01_56\t-0.11633575\t.\t1.0\t1.0\t1.0\n+chr3L\t4365000\t4405000\tID_0.01_57\t-0.0944955\t.\t1.0\t1.0\t1.0\n+chr3L\t4405000\t4490000\tID_0.01_58\t-0.07463925\t.\t1.0\t1.0\t1.0\n+chr3L\t4490000\t4625000\tID_0.01_59\t0.00287075\t.\t1.0\t1.0\t1.0\n+chr3L\t4625000\t4650000\tID_0.01_60\t0.04064075\t.\t1.0\t1.0\t1.0\n+chr3L\t4650000\t4790000\tID_0.01_"..b'0.0932985\t.\t1.0\t1.0\t1.0\n+chr3R\t21615000\t21730000\tID_0.01_1340\t-0.081974\t.\t1.0\t1.0\t1.0\n+chr3R\t21730000\t21820000\tID_0.01_1341\t0.07025075\t.\t1.0\t1.0\t1.0\n+chr3R\t21820000\t21845000\tID_0.01_1342\t-0.00145975\t.\t1.0\t1.0\t1.0\n+chr3R\t21845000\t21950000\tID_0.01_1343\t0.0360515\t.\t1.0\t1.0\t1.0\n+chr3R\t21950000\t21990000\tID_0.01_1344\t0.002742\t.\t1.0\t1.0\t1.0\n+chr3R\t21990000\t22075000\tID_0.01_1345\t0.00713375\t.\t1.0\t1.0\t1.0\n+chr3R\t22075000\t22220000\tID_0.01_1346\t-0.087915\t.\t1.0\t1.0\t1.0\n+chr3R\t22220000\t22270000\tID_0.01_1347\t0.0614505\t.\t1.0\t1.0\t1.0\n+chr3R\t22270000\t22310000\tID_0.01_1348\t-0.02575325\t.\t1.0\t1.0\t1.0\n+chr3R\t22310000\t22380000\tID_0.01_1349\t-0.04946475\t.\t1.0\t1.0\t1.0\n+chr3R\t22380000\t22500000\tID_0.01_1350\t-0.055847\t.\t1.0\t1.0\t1.0\n+chr3R\t22500000\t22520000\tID_0.01_1351\t-0.0631105\t.\t1.0\t1.0\t1.0\n+chr3R\t22520000\t22605000\tID_0.01_1352\t-0.062648\t.\t1.0\t1.0\t1.0\n+chr3R\t22605000\t22695000\tID_0.01_1353\t-0.011252\t.\t1.0\t1.0\t1.0\n+chr3R\t22695000\t22780000\tID_0.01_1354\t-0.089033\t.\t1.0\t1.0\t1.0\n+chr3R\t22780000\t22885000\tID_0.01_1355\t-0.04050025\t.\t1.0\t1.0\t1.0\n+chr3R\t22885000\t22985000\tID_0.01_1356\t-0.05683475\t.\t1.0\t1.0\t1.0\n+chr3R\t22985000\t23110000\tID_0.01_1357\t-0.0237815\t.\t1.0\t1.0\t1.0\n+chr3R\t23110000\t23185000\tID_0.01_1358\t-0.100625\t.\t1.0\t1.0\t1.0\n+chr3R\t23185000\t23195000\tID_0.01_1359\t-0.00294725\t.\t1.0\t1.0\t1.0\n+chr3R\t23195000\t23415000\tID_0.01_1360\t-0.00275775\t.\t1.0\t1.0\t1.0\n+chr3R\t23415000\t23560000\tID_0.01_1361\t-0.090027\t.\t1.0\t1.0\t1.0\n+chr3R\t23560000\t23770000\tID_0.01_1362\t-0.104602\t.\t1.0\t1.0\t1.0\n+chr3R\t23770000\t23815000\tID_0.01_1363\t-0.1119105\t.\t1.0\t1.0\t1.0\n+chr3R\t23815000\t23920000\tID_0.01_1364\t-0.0660765\t.\t1.0\t1.0\t1.0\n+chr3R\t23920000\t24030000\tID_0.01_1365\t-0.04218475\t.\t1.0\t1.0\t1.0\n+chr3R\t24030000\t24160000\tID_0.01_1366\t-0.05579575\t.\t1.0\t1.0\t1.0\n+chr3R\t24160000\t24205000\tID_0.01_1367\t-0.01546725\t.\t1.0\t1.0\t1.0\n+chr3R\t24205000\t24345000\tID_0.01_1368\t-0.0326015\t.\t1.0\t1.0\t1.0\n+chr3R\t24345000\t24375000\tID_0.01_1369\t-0.0623065\t.\t1.0\t1.0\t1.0\n+chr3R\t24375000\t24450000\tID_0.01_1370\t-0.0749395\t.\t1.0\t1.0\t1.0\n+chr3R\t24450000\t24625000\tID_0.01_1371\t-0.09836075\t.\t1.0\t1.0\t1.0\n+chr3R\t24625000\t24745000\tID_0.01_1372\t-0.03171375\t.\t1.0\t1.0\t1.0\n+chr3R\t24745000\t24885000\tID_0.01_1373\t-0.08589625\t.\t1.0\t1.0\t1.0\n+chr3R\t24885000\t24995000\tID_0.01_1374\t-0.09323725\t.\t1.0\t1.0\t1.0\n+chr3R\t24995000\t25090000\tID_0.01_1375\t-0.0589785\t.\t1.0\t1.0\t1.0\n+chr3R\t25090000\t25165000\tID_0.01_1376\t0.03674225\t.\t1.0\t1.0\t1.0\n+chr3R\t25165000\t25330000\tID_0.01_1377\t-0.0462465\t.\t1.0\t1.0\t1.0\n+chr3R\t25330000\t25405000\tID_0.01_1378\t-0.08303325\t.\t1.0\t1.0\t1.0\n+chr3R\t25405000\t25570000\tID_0.01_1379\t-0.00546225\t.\t1.0\t1.0\t1.0\n+chr3R\t25570000\t25580000\tID_0.01_1380\t-0.04654075\t.\t1.0\t1.0\t1.0\n+chr3R\t25580000\t25730000\tID_0.01_1381\t-0.01871575\t.\t1.0\t1.0\t1.0\n+chr3R\t25730000\t25880000\tID_0.01_1382\t-0.00858875\t.\t1.0\t1.0\t1.0\n+chr3R\t25880000\t25990000\tID_0.01_1383\t-0.10581625\t.\t1.0\t1.0\t1.0\n+chr3R\t25990000\t26050000\tID_0.01_1384\t-0.090403\t.\t1.0\t1.0\t1.0\n+chr3R\t26050000\t26180000\tID_0.01_1385\t-0.0935315\t.\t1.0\t1.0\t1.0\n+chr3R\t26180000\t26275000\tID_0.01_1386\t-0.11469275\t.\t1.0\t1.0\t1.0\n+chr3R\t26275000\t26330000\tID_0.01_1387\t-0.1002735\t.\t1.0\t1.0\t1.0\n+chr3R\t26330000\t26490000\tID_0.01_1388\t-0.092304\t.\t1.0\t1.0\t1.0\n+chr3R\t26490000\t26565000\tID_0.01_1389\t0.0627965\t.\t1.0\t1.0\t1.0\n+chr3R\t26565000\t26640000\tID_0.01_1390\t-0.01974475\t.\t1.0\t1.0\t1.0\n+chr3R\t26640000\t26715000\tID_0.01_1391\t-0.07430725\t.\t1.0\t1.0\t1.0\n+chr3R\t26715000\t26870000\tID_0.01_1392\t-0.049789\t.\t1.0\t1.0\t1.0\n+chr3R\t26870000\t27045000\tID_0.01_1393\t-0.0249905\t.\t1.0\t1.0\t1.0\n+chr3R\t27045000\t27155000\tID_0.01_1394\t-0.074189\t.\t1.0\t1.0\t1.0\n+chr3R\t27155000\t27185000\tID_0.01_1395\t-0.00609925\t.\t1.0\t1.0\t1.0\n+chr3R\t27185000\t27250000\tID_0.01_1396\t-0.01281025\t.\t1.0\t1.0\t1.0\n+chr3R\t27250000\t27385000\tID_0.01_1397\t-0.04990275\t.\t1.0\t1.0\t1.0\n+chr3R\t27385000\t27420000\tID_0.01_1398\t-0.041305\t.\t1.0\t1.0\t1.0\n+chr3R\t27420000\t27570000\tID_0.01_1399\t-0.0499295\t.\t1.0\t1.0\t1.0\n+chr3R\t27570000\t27700000\tID_0.01_1400\t-0.08094325\t.\t1.0\t1.0\t1.0\n+chr3R\t27700000\t27750000\tID_0.01_1401\t-0.01535\t.\t1.0\tnan\t1.0\n+chr3R\t27750000\t27770000\tID_0.01_1402\t0.01357725\t.\t1.0\tnan\t1.0\n' |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicHyperoptDetectLoops/loops.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicHyperoptDetectLoops/loops.bedgraph Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicMergeDomains/100kbtad_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/100kbtad_domains.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicMergeDomains/10kbtad_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/10kbtad_domains.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicMergeDomains/50kbtad_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/50kbtad_domains.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 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 44d6bef89faa -r db4a82804126 test-data/hicMergeDomains/ctcf_sorted.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/ctcf_sorted.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicMergeDomains/merged_list.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/merged_list.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicMergeDomains/relationship.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/hicMergeDomains/relationship.txt Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 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 Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/hicPlotMatrix/plot1.png |
b |
Binary file test-data/hicPlotMatrix/plot1.png has changed |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicPlotMatrix/plot2.pdf |
b |
Binary file test-data/hicPlotMatrix/plot2.pdf has changed |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicPlotMatrix/plot3_pca.svg --- a/test-data/hicPlotMatrix/plot3_pca.svg Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/hicPlotMatrix/plot3_pca.svg Tue Mar 16 15:23:20 2021 +0000 |
b |
b'@@ -2,48 +2,61 @@\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="612pt" version="1.1" viewBox="0 0 576 612" width="576pt" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">\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>2021-02-14T19:28:28.926388</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">\n-*{stroke-linecap:butt;stroke-linejoin:round;}\n- </style>\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 0 612 \n-L 576 612 \n-L 576 0 \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 72 499.310295 \n-L 494.446829 499.310295 \n-L 494.446829 73.44 \n-L 72 73.44 \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="424.8" id="image363da65b7f" transform="scale(1 -1)translate(0 -424.8)" width="424.8" x="72" xlink:href="data:image/png;base64,\n-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" y="-72"/>\n+ <image height="410.4" id="image582374746f" 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="m8cdc9e5860" style="stroke:#000000;stroke-width:0.8;"/>\n+" id="m7cb3fac755" style="stroke:#000000;stroke-width:0.8;"/>\n </defs>\n <g>\n- <use style="stroke:#000000;stroke-width:0.8;" x="72" xlink:href="#m8cdc9e5860" y="73.44"/>\n+ <use style="stroke:#000000;stroke-width:0.8;" x="71.4125" xlink:href="#m7cb3fac755" y="36.3125"/>\n </g>\n </g>\n <g id="text_1">\n <!-- 3.00 -->\n- <defs>\n- <path d="M 40.578125 39.3125 \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@@ -75,13 +88,13 @@\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+ <path d="M 10.6875 12.40625 \n L 21 12.40625 \n L 21 0 \n L 10.6875 0 \n z\n "'..b'.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(#pde4865bb25)" 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(#pde4865bb25)" 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(#pde4865bb25)" 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(#pde4865bb25)" 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(#pde4865bb25)" 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(#pde4865bb25)" 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(#pde4865bb25)" 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="#m646aa5daad" 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="#m646aa5daad" 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="#m646aa5daad" 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="pbab51a357b">\n- <rect height="33.876046" width="422.446829" x="72" y="510.803954"/>\n+ <clipPath id="p32fba8a540">\n+ <rect height="407.779724" width="35.6625" x="536.0375" y="36.3125"/>\n </clipPath>\n- <clipPath id="pf05c0f3022">\n- <rect height="425.870295" width="13.065366" x="505.334634" y="73.44"/>\n+ <clipPath id="pde4865bb25">\n+ <rect height="70.035945" width="453.825" x="71.4125" y="458.492224"/>\n </clipPath>\n </defs>\n </svg>\n' |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicPlotSVL/p_values.txt --- a/test-data/hicPlotSVL/p_values.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/hicPlotSVL/p_values.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Created with HiCExplorer's hicPlotSVL 3.3 +# Created with HiCExplorer's hicPlotSVL 3.6 # 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 44d6bef89faa -r db4a82804126 test-data/hicPlotSVL/plot.png |
b |
Binary file test-data/hicPlotSVL/plot.png has changed |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicPlotSVL/ratios.txt --- a/test-data/hicPlotSVL/ratios.txt Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/hicPlotSVL/ratios.txt Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,4 +1,4 @@ -# Created with HiCExplorer's hicPlotSVL 3.3 +# Created with HiCExplorer's hicPlotSVL 3.6 # Short range vs long range contacts per chromosome: raw data # Short range contacts: <= 2000000 # 0_small_test_matrix.h5 1_small_test_matrix.h5 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicQuickQC/QC.log --- a/test-data/hicQuickQC/QC.log Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/hicQuickQC/QC.log Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,5 +1,5 @@ -File /tmp/tmpp4d6khlj.h5 +File /tmp/tmp12xmnm2f.h5 Sequenced reads 983 Min rest. site distance 300 Max library insert size 1000 @@ -12,11 +12,11 @@ Low mapping quality 164 (16.68) # count (percentage w.r.t. mappable, unique and high quality pairs) -dangling end 0 (0.00) +dangling end GATC 1 (0.33) self ligation (removed) 0 (0.00) One mate not close to rest site 0 (0.00) -same fragment 85 (28.33) -self circle 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) |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/hicValidateLocations/overlap_smc3_statistics --- a/test-data/hicValidateLocations/overlap_smc3_statistics Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/hicValidateLocations/overlap_smc3_statistics Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,5 +1,5 @@ -# HiCExplorer hicValidateLocations 3.3 -# Overlap of loop file /tmp/tmpo82hqd2o/files/4/a/4/dataset_4a45db46-19b9-4b40-9d5b-d049a100e2aa.dat with protein file /tmp/tmpo82hqd2o/files/3/5/8/dataset_358b0ce7-ab08-46fc-8968-195d416429ca.dat +# HiCExplorer hicValidateLocations 3.6 +# Overlap of loop file /tmp/tmpd80q3k6g/files/a/4/0/dataset_a40f2565-c94b-4e73-9b47-ec233d99bda8.dat with protein file /tmp/tmpd80q3k6g/files/7/1/1/dataset_7116b645-b87b-49a2-a957-3ebe53aba250.dat # Protein peaks: 3097 Matched Loops: 530 |
b |
diff -r 44d6bef89faa -r db4a82804126 test-data/multiNone_domains.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/multiNone_domains.bed Tue Mar 16 15:23:20 2021 +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 44d6bef89faa -r db4a82804126 test-data/raw_qc_report --- a/test-data/raw_qc_report Fri Dec 11 21:31:00 2020 +0000 +++ b/test-data/raw_qc_report Tue Mar 16 15:23:20 2021 +0000 |
b |
@@ -1,5 +1,5 @@ -File matrix.cool +File matrix.h5 Sequenced reads 983 Min rest. site distance 300 Max library insert size 1000 @@ -12,11 +12,11 @@ Low mapping quality 164 (16.68) # count (percentage w.r.t. mappable, unique and high quality pairs) -dangling end 0 (0.00) +dangling end GATC 1 (0.33) self ligation (removed) 0 (0.00) One mate not close to rest site 0 (0.00) -same fragment 85 (28.33) -self circle 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) |