| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/3.3 |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/3.2.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/3.1.1.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/3.1.2 |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/3.1.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/2.0.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/2.0.0 |
| pygenomeTracks |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| pygenometracks | 3.2.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
tracks_11|track_file_style_conditional|fontsize: 10 tracks_8|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_6|track_file_style_conditional|height_bigwig: 4 tracks_0|track_file_style_conditional|title: Kc DpnII (Li et al. 2015) tracks_6|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_2|track_file_style_conditional|color_bed|color_bed_select: bed_rgb tracks_13|track_file_style_conditional|bed_advanced|gene_rows: 3 tracks_15|track_file_style_conditional|bed_advanced|global_max_row: True tracks_16|track_file_style_conditional|track_file_style_selector: vlines_track_option tracks_0|track_file_style_conditional|boundaries_file: domains.bed tracks_4|track_file_style_conditional|track_file_style_selector: spacer_option tracks_11|track_file_style_conditional|track_file_style_selector: gene_track_option image_file_format: png tracks_2|track_file_style_conditional|title: TAD state tracks_5|track_file_style_conditional|height_bedgraph: 4 tracks_7|track_file_style_conditional|color: red tracks_11|track_file_style_conditional|height_bed: 5 tracks_2|track_file_style_conditional|track_file_style_selector: chrom_states_option tracks_9|track_file_style_conditional|title: rep 1 test point:0.5 tracks_5|track_file_style_conditional|track_input_bedgraph: bedgraph_chrx_2e6_5e6.bg tracks_6|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_1|track_file_style_conditional|spacer_height: 0.05 tracks_1|track_file_style_conditional|track_file_style_selector: spacer_option x_axis|x_axis_select: true tracks_7|track_file_style_conditional|title: rep 1 test line tracks_11|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz tracks_9|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_0|track_file_style_conditional|depth: 200000 tracks_16|track_file_style_conditional|track_input_bed_single: domains.bed tracks_2|track_file_style_conditional|labels: False tracks_9|track_file_style_conditional|height_bigwig: 4 tracks_3|track_file_style_conditional|track_input_bedgraph_matrix: tad_score.gz tracks_5|track_file_style_conditional|color: blue tracks_13|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_0|track_file_style_conditional|matrix_h5_cooler_multiple: Li_et_al_2015.h5 tracks_8|track_file_style_conditional|type_conditional|type_selector: line_option tracks_13|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz tracks_8|track_file_style_conditional|color: red tracks_15|track_file_style_conditional|fontsize: 10 tracks_0|track_file_style_conditional|colormap: RdYlBu_r tracks_10|track_file_style_conditional|spacer_height: 0.5 tracks_3|track_file_style_conditional|title: TAD separation score (Ramirez et al.) tracks_10|track_file_style_conditional|track_file_style_selector: spacer_option tracks_8|track_file_style_conditional|type_conditional|width_line: 0.1 tracks_3|track_file_style_conditional|height_bedgraph: 10 tracks_8|track_file_style_conditional|height_bigwig: 4 tracks_7|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_8|track_file_style_conditional|title: rep 1 test lw=0.2 tracks_15|track_file_style_conditional|track_input_bed: dm3_genes.bed6.gz tracks_7|track_file_style_conditional|type_conditional|type_selector: line_option tracks_15|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_9|track_file_style_conditional|color: black tracks_5|track_file_style_conditional|title: bedgraph tracks_2|track_file_style_conditional|track_input_bed: tad_classification.bed tracks_7|track_file_style_conditional|height_bigwig: 4 tracks_0|track_file_style_conditional|track_file_style_selector: hic_matrix_option tracks_2|track_file_style_conditional|height_chrom: 0.5 tracks_6|track_file_style_conditional|color: blue tracks_7|track_file_style_conditional|type_conditional|width_line: 1 tracks_13|track_file_style_conditional|height_bed: 3 tracks_5|track_file_style_conditional|track_file_style_selector: bedgraph_track_option tracks_7|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_11|track_file_style_conditional|title: genes tracks_6|track_file_style_conditional|title: rep 1 test fill tracks_6|track_file_style_conditional|type_conditional|type_selector: fill_option tracks_13|track_file_style_conditional|fontsize: 8 region: chrX:3000000-3500000 tracks_8|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_0|track_file_style_conditional|transform: log1p tracks_14|track_file_style_conditional|spacer_height: 1 tracks_15|track_file_style_conditional|title: bed6 global max row tracks_3|track_file_style_conditional|track_file_style_selector: bedgraph_matrix_track_option tracks_4|track_file_style_conditional|spacer_height: 1 tracks_9|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_13|track_file_style_conditional|title: max num rows 3 tracks_9|track_file_style_conditional|type_conditional|width_point: 0.5 tracks_12|track_file_style_conditional|spacer_height: 1 tracks_9|track_file_style_conditional|type_conditional|type_selector: point_option tracks_12|track_file_style_conditional|track_file_style_selector: spacer_option tracks_15|track_file_style_conditional|height_bed: 20 tracks_14|track_file_style_conditional|track_file_style_selector: spacer_option |
attributes: name |
Li_et_al_2015.h5 domains.bed tad_classification.bed tad_score.gz bedgraph_chrx_2e6_5e6.bg bigwig_chrx_2e6_5e6.bw dm3_genes.bed.gz dm3_genes.bed6.gz domains.bed name |
| Test-2 |
tracks_2|track_file_style_conditional|y_values: 50 tracks_0|track_file_style_conditional|title: rep 1 test line tracks_0|track_file_style_conditional|track_input_bigwig: ['bigwig_chrx_2e6_5e6.bw', 'bigwig_chrx_2e6_5e6.bw'] tracks_2|track_file_style_conditional|line_style: dashed tracks_3|track_file_style_conditional|y_values: 0, 10, 20, 100 tracks_3|track_file_style_conditional|min_value: 12 image_file_format: png tracks_0|track_file_style_conditional|height_bigwig: 4 tracks_2|track_file_style_conditional|title: tracks_2|track_file_style_conditional|track_file_style_selector: hlines_track_option tracks_1|track_file_style_conditional|track_file_style_selector: bigwig_track_option x_axis|x_axis_select: true tracks_3|track_file_style_conditional|color: purple tracks_2|track_file_style_conditional|overlay_select: share-y tracks_1|track_file_style_conditional|height_bigwig: 4 tracks_1|track_file_style_conditional|type_conditional|type_selector: line_option tracks_3|track_file_style_conditional|title: hlines tracks_0|track_file_style_conditional|color: red tracks_0|track_file_style_conditional|type_conditional|type_selector: line_option tracks_0|track_file_style_conditional|type_conditional|width_line: 1 tracks_1|track_file_style_conditional|type_conditional|width_line: 1 tracks_1|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_3|track_file_style_conditional|show_data: True tracks_0|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_1|track_file_style_conditional|color: blue tracks_2|track_file_style_conditional|line_width: 2 tracks_1|track_file_style_conditional|show_data: True region: chrX:3000000-3500000 tracks_1|track_file_style_conditional|title: nans_to_zeros tracks_3|track_file_style_conditional|track_file_style_selector: hlines_track_option tracks_2|track_file_style_conditional|color: orange tracks_1|track_file_style_conditional|reading_bw_conditional|nans_to_zeros: True tracks_3|track_file_style_conditional|invert_orientation: True |
attributes: name |
bigwig_chrx_2e6_5e6.bw bigwig_chrx_2e6_5e6.bw name |
| Test-3 |
tracks_10|track_file_style_conditional|flybase: False tracks_11|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_11|track_file_style_conditional|color_bed|color: RdYlBu_r tracks_5|track_file_style_conditional|height_bedgraph: 4 tracks_6|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_9|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_7|track_file_style_conditional|reading_bw_conditional|number_of_bins: 100 tracks_2|track_file_style_conditional|depth: 200000 tracks_7|track_file_style_conditional|height_bigwig: 10 tracks_10|track_file_style_conditional|height_bed: 5 tracks_4|track_file_style_conditional|color_negative|color: red tracks_11|track_file_style_conditional|bed_advanced|global_max_row: True tracks_5|track_file_style_conditional|title: bedgraph tracks_10|track_file_style_conditional|title: genes in ucsc tracks_3|track_file_style_conditional|track_file_style_selector: spacer_option tracks_12|track_file_style_conditional|height_bed: 2 tracks_8|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_6|track_file_style_conditional|color: blue tracks_1|track_file_style_conditional|color_bed|color_bed_select: bed_rgb tracks_8|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_2|track_file_style_conditional|transform: no tracks_1|track_file_style_conditional|labels: False tracks_0|track_file_style_conditional|boundaries_file: domains.bed tracks_4|track_file_style_conditional|track_file_style_selector: bedgraph_track_option image_file_format: png tracks_7|track_file_style_conditional|color: red tracks_11|track_file_style_conditional|height_bed: 20 tracks_2|track_file_style_conditional|track_file_style_selector: hic_matrix_option tracks_12|track_file_style_conditional|title: domains.bed using the 9th field for colors interleaved tracks_7|track_file_style_conditional|type_conditional|width_point: 5 tracks_7|track_file_style_conditional|title: (red points/width=5/max value/100 bins) overlayed with (dark red line/min value/30000 bins) overlayed with (black line/min value) tracks_11|track_file_style_conditional|track_input_bed: dm3_genes.bed6.gz tracks_4|track_file_style_conditional|height_bedgraph: 4 tracks_2|track_file_style_conditional|invert_orientation: True tracks_7|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_12|track_file_style_conditional|fontsize: 10 tracks_6|track_file_style_conditional|type_conditional|type_selector: fill_option tracks_9|track_file_style_conditional|color: black tracks_4|track_file_style_conditional|track_input_bedgraph: test_with_neg_values.bg.gz tracks_2|track_file_style_conditional|matrix_h5_cooler_multiple: Li_et_al_2015.h5 region: chrX:3000000-3500000 tracks_12|track_file_style_conditional|display: interleaved tracks_2|track_file_style_conditional|max_value: 70 tracks_12|track_file_style_conditional|border_color: red tracks_11|track_file_style_conditional|fontsize: 10 tracks_5|track_file_style_conditional|type_conditional|type_selector: fill_option tracks_6|track_file_style_conditional|height_bigwig: 4 tracks_6|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_1|track_file_style_conditional|height_chrom: 0.5 tracks_2|track_file_style_conditional|title: Kc DpnII (Li et al. 2015) inverted no transform tracks_0|track_file_style_conditional|title: Kc DpnII (Li et al. 2015) log1p tracks_9|track_file_style_conditional|spacer_height: 1 tracks_7|track_file_style_conditional|reading_bw_conditional|summary: max tracks_2|track_file_style_conditional|colormap: Reds tracks_12|track_file_style_conditional|labels: False tracks_2|track_file_style_conditional|min_value: 5 tracks_9|track_file_style_conditional|reading_bw_conditional|summary: min tracks_0|track_file_style_conditional|matrix_h5_cooler_multiple: Li_et_al_2015.h5 tracks_8|track_file_style_conditional|color: #c00000 tracks_10|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_8|track_file_style_conditional|height_bigwig: 10 tracks_9|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_0|track_file_style_conditional|track_file_style_selector: hic_matrix_option tracks_3|track_file_style_conditional|spacer_height: 1 tracks_11|track_file_style_conditional|title: bed6 global max row color from score tracks_6|track_file_style_conditional|title: rep 1 test fill tracks_11|track_file_style_conditional|color_bed|color_bed_select: colormap tracks_0|track_file_style_conditional|transform: log1p tracks_0|track_file_style_conditional|colormap: RdYlBu_r tracks_12|track_file_style_conditional|color_bed|color_bed_select: bed_rgb tracks_5|track_file_style_conditional|color: blue tracks_9|track_file_style_conditional|height_bigwig: 10 tracks_4|track_file_style_conditional|color_negative|color_negative_select: true tracks_4|track_file_style_conditional|type_conditional|type_selector: fill_option tracks_10|track_file_style_conditional|fontsize: 10 tracks_4|track_file_style_conditional|title: bedgraph with negative values tracks_5|track_file_style_conditional|track_input_bedgraph: bedgraph_chrx_2e6_5e6.bg tracks_4|track_file_style_conditional|color: black tracks_12|track_file_style_conditional|track_input_bed: domains.bed tracks_1|track_file_style_conditional|track_file_style_selector: chrom_states_option x_axis|x_axis_select: true tracks_9|track_file_style_conditional|overlay_select: share-y tracks_10|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz tracks_0|track_file_style_conditional|depth: 200000 tracks_7|track_file_style_conditional|type_conditional|type_selector: point_option tracks_1|track_file_style_conditional|track_input_bed: tad_classification.bed tracks_8|track_file_style_conditional|overlay_select: share-y tracks_9|track_file_style_conditional|reading_bw_conditional|number_of_bins: 30000 tracks_8|track_file_style_conditional|reading_bw_conditional|summary: min tracks_5|track_file_style_conditional|track_file_style_selector: bedgraph_track_option tracks_7|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_1|track_file_style_conditional|title: TAD state tracks_8|track_file_style_conditional|type_conditional|type_selector: line_option tracks_9|track_file_style_conditional|type_conditional|type_selector: line_option tracks_12|track_file_style_conditional|track_file_style_selector: gene_track_option |
attributes: name |
Li_et_al_2015.h5 domains.bed tad_classification.bed test_with_neg_values.bg.gz bedgraph_chrx_2e6_5e6.bg bigwig_chrx_2e6_5e6.bw dm3_genes.bed.gz dm3_genes.bed6.gz domains.bed name |
| Test-4 |
tracks_0|track_file_style_conditional|color: #00b0f0 tracks_0|track_file_style_conditional|height_bigwig: 7 tracks_0|track_file_style_conditional|title: (bigwig color=blue 2000 bins) overlayed with (bigwig mean color=red alpha = 0.5 max over 300 bins) tracks_0|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_1|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_1|track_file_style_conditional|overlay_select: share-y region: X:2700000-3100000 image_file_format: png tracks_1|track_file_style_conditional|title: tracks_1|track_file_style_conditional|reading_bw_conditional|number_of_bins: 300 tracks_1|track_file_style_conditional|alpha: 0.5 tracks_0|track_file_style_conditional|reading_bw_conditional|number_of_bins: 2000 tracks_0|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_1|track_file_style_conditional|color: #ff0000 x_axis|where: bottom tracks_1|track_file_style_conditional|track_file_style_selector: bigwig_track_option x_axis|x_axis_select: true |
attributes: name |
bigwig_chrx_2e6_5e6.bw name |
| Test-5 |
tracks_1|track_file_style_conditional|track_input_bed: dm3_subset_BDGP5.78_asbed4.bed.gz tracks_1|track_file_style_conditional|flybase: False tracks_1|track_file_style_conditional|height_bed: 10 tracks_0|track_file_style_conditional|title: test tracks_0|track_file_style_conditional|spacer_height: 1 tracks_0|track_file_style_conditional|flybase: False region: X:3000000-3300000 tracks_0|track_file_style_conditional|track_input_bed: dm3_subset_BDGP5.78.gtf.gz image_file_format: png tracks_1|track_file_style_conditional|title: test tracks_0|track_file_style_conditional|height_bed: 10 tracks_0|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_1|track_file_style_conditional|spacer_height: 1 tracks_1|track_file_style_conditional|track_file_style_selector: gene_track_option x_axis|x_axis_select: true |
attributes: name |
dm3_subset_BDGP5.78.gtf.gz dm3_subset_BDGP5.78_asbed4.bed.gz name |
| Test-6 |
tracks_0|track_file_style_conditional|title: box tracks_2|track_file_style_conditional|display|use_summit: False tracks_0|track_file_style_conditional|height_narrow_peak: 4 image_file_format: png tracks_1|track_file_style_conditional|display|use_summit: True tracks_2|track_file_style_conditional|title: peak no data range tracks_2|track_file_style_conditional|track_file_style_selector: narrow_peak_track_option tracks_1|track_file_style_conditional|spacer_height: 0.5 tracks_1|track_file_style_conditional|track_file_style_selector: narrow_peak_track_option x_axis|x_axis_select: true tracks_1|track_file_style_conditional|display|max_value: 50 tracks_2|track_file_style_conditional|show_labels: True tracks_1|track_file_style_conditional|display|display_selector: peak tracks_0|track_file_style_conditional|display|use_summit: True tracks_1|track_file_style_conditional|show_labels: False x_axis|where: bottom tracks_2|track_file_style_conditional|color: #000000 tracks_0|track_file_style_conditional|color: #9bbb59 tracks_2|track_file_style_conditional|display|show_data: False tracks_2|track_file_style_conditional|height_narrow_peak: 4 tracks_1|track_file_style_conditional|height_narrow_peak: 4 tracks_0|track_file_style_conditional|track_file_style_selector: narrow_peak_track_option tracks_1|track_file_style_conditional|color: #c0504d tracks_0|track_file_style_conditional|show_labels: True tracks_1|track_file_style_conditional|display|show_data: True tracks_0|track_file_style_conditional|display|display_selector: box region: X:2760000-2802000 tracks_0|track_file_style_conditional|track_input_narrow_peak: test2.narrowPeak tracks_1|track_file_style_conditional|track_input_narrow_peak: test2.narrowPeak tracks_1|track_file_style_conditional|title: peak width 3 tracks_2|track_file_style_conditional|display|display_selector: peak tracks_2|track_file_style_conditional|track_input_narrow_peak: test2.narrowPeak tracks_1|track_file_style_conditional|display|width_adjust: 3 |
attributes: name |
test2.narrowPeak name |
| Test-7 |
tracks_1|track_file_style_conditional|track_input_bed: dm3_subset_BDGP5.78.gtf.gz tracks_1|track_file_style_conditional|height_bed: 10 tracks_0|track_file_style_conditional|title: genes tracks_1|track_file_style_conditional|bed_advanced|gtf|merge_transcripts: True tracks_0|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz tracks_1|track_file_style_conditional|bed_advanced|flybase|height_utr: 0.75 region: chrX:3300000-3500000 tracks_1|track_file_style_conditional|bed_advanced|flybase|color_utr: #ff0000 image_file_format: png tracks_1|track_file_style_conditional|title: gtf tracks_0|track_file_style_conditional|height_bed: 10 tracks_0|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_1|track_file_style_conditional|bed_advanced|gtf|prefered_name: gene_name tracks_1|track_file_style_conditional|track_file_style_selector: gene_track_option x_axis|x_axis_select: true |
attributes: name |
dm3_genes.bed.gz dm3_subset_BDGP5.78.gtf.gz name |
| Test-8 |
tracks_1|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz tracks_1|track_file_style_conditional|flybase: False tracks_1|track_file_style_conditional|height_bed: 10 tracks_0|track_file_style_conditional|title: dm3_genes.bed tracks_0|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz region: chrX:3300000-3500000 tracks_0|track_file_style_conditional|flybase: False image_file_format: png tracks_1|track_file_style_conditional|title: genes.bed.gz tracks_0|track_file_style_conditional|bed_advanced|max_labels: 15 tracks_0|track_file_style_conditional|bed_advanced|global_max_row: True tracks_0|track_file_style_conditional|height_bed: 10 tracks_1|track_file_style_conditional|bed_advanced|ucsc|arrow_interval: 10 tracks_0|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_1|track_file_style_conditional|bed_advanced|line_width: 2 tracks_1|track_file_style_conditional|track_file_style_selector: gene_track_option x_axis|x_axis_select: true |
attributes: name |
dm3_genes.bed.gz name |
| Test-9 |
tracks_1|track_file_style_conditional|color_bed|color_bed_select: manually tracks_0|track_file_style_conditional|title: test tracks_2|track_file_style_conditional|color_bed|color_bed_select: manually tracks_0|track_file_style_conditional|spacer_height: 1 image_file_format: png tracks_2|track_file_style_conditional|title: test tracks_2|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_1|track_file_style_conditional|spacer_height: 1 tracks_1|track_file_style_conditional|track_file_style_selector: gene_track_option x_axis|x_axis_select: true tracks_1|track_file_style_conditional|color_bed|color: red tracks_0|track_file_style_conditional|flybase: True tracks_2|track_file_style_conditional|flybase: True tracks_1|track_file_style_conditional|track_input_bed: dm3_subset_BDGP5.78_asbed4.bed.gz tracks_2|track_file_style_conditional|height_bed: 10 tracks_0|track_file_style_conditional|track_input_bed: dm3_subset_BDGP5.78.gtf.gz tracks_2|track_file_style_conditional|spacer_height: 1 tracks_2|track_file_style_conditional|track_input_bed: dm3_subset_BDGP5.78.gtf.gz tracks_2|track_file_style_conditional|arrowhead_included: True tracks_0|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_3|track_file_style_conditional|track_input_bed_single: dm3_subset_BDGP5.78_asbed4.bed.gz tracks_1|track_file_style_conditional|height_bed: 10 tracks_3|track_file_style_conditional|track_file_style_selector: vlines_track_option tracks_2|track_file_style_conditional|color_bed|color: red region: X:3133000-3138000 tracks_1|track_file_style_conditional|flybase: False tracks_1|track_file_style_conditional|title: test tracks_0|track_file_style_conditional|height_bed: 10 |
attributes: name |
dm3_subset_BDGP5.78.gtf.gz dm3_subset_BDGP5.78_asbed4.bed.gz name |
| Test-10 |
tracks_0|track_file_style_conditional|spacer_height: 1 tracks_0|track_file_style_conditional|color_bed|color_bed_select: manually tracks_0|track_file_style_conditional|color_bed|color: yellow tracks_2|track_file_style_conditional|title: bedgraph tracks_2|track_file_style_conditional|track_file_style_selector: bedgraph_track_option tracks_1|track_file_style_conditional|track_file_style_selector: bedgraph_track_option tracks_1|track_file_style_conditional|height_bedgraph: 4 tracks_1|track_file_style_conditional|track_input_bedgraph: bedgraph_chrx_2e6_5e6.bg image_file_format: png tracks_1|track_file_style_conditional|type_conditional|type_selector: line_option tracks_2|track_file_style_conditional|track_input_bedgraph: bedgraph_chrx_2e6_5e6.bg tracks_0|track_file_style_conditional|display: triangles x_axis|x_axis_select: true tracks_2|track_file_style_conditional|color: blue tracks_2|track_file_style_conditional|type_conditional|type_selector: line_option tracks_0|track_file_style_conditional|track_input_bed: domains.bed tracks_2|track_file_style_conditional|height_bedgraph: 4 tracks_2|track_file_style_conditional|use_middle: True tracks_0|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_1|track_file_style_conditional|color: blue region: X:3340000-3380000 tracks_1|track_file_style_conditional|title: bedgraph tracks_0|track_file_style_conditional|height_bed: 6 |
attributes: name |
domains.bed bedgraph_chrx_2e6_5e6.bg name |
| Test-11 |
tracks_2|track_file_style_conditional|show_data: True tracks_0|track_file_style_conditional|title: Kc DpnII (Li et al. 2015) tracks_0|track_file_style_conditional|scale_factor: 2.0 tracks_3|track_file_style_conditional|type_lines: True image_file_format: png tracks_2|track_file_style_conditional|title: TAD separation score (Ramirez et al.) tracks_2|track_file_style_conditional|track_file_style_selector: bedgraph_matrix_track_option tracks_1|track_file_style_conditional|spacer_height: 0.05 tracks_1|track_file_style_conditional|track_file_style_selector: spacer_option x_axis|x_axis_select: true tracks_0|track_file_style_conditional|depth: 100000 tracks_3|track_file_style_conditional|track_input_bedgraph_matrix: tad_score.gz tracks_2|track_file_style_conditional|plot_horizontal_lines: True tracks_0|track_file_style_conditional|matrix_h5_cooler_multiple: Li_et_al_2015.h5 tracks_3|track_file_style_conditional|pos_score_in_bin: center tracks_2|track_file_style_conditional|type_lines: True tracks_3|track_file_style_conditional|title: TAD separation score (Ramirez et al.) tracks_3|track_file_style_conditional|height_bedgraph: 10 tracks_3|track_file_style_conditional|plot_horizontal_lines: False tracks_2|track_file_style_conditional|pos_score_in_bin: block tracks_2|track_file_style_conditional|height_bedgraph: 10 tracks_0|track_file_style_conditional|track_file_style_selector: hic_matrix_option tracks_3|track_file_style_conditional|track_file_style_selector: bedgraph_matrix_track_option tracks_2|track_file_style_conditional|track_input_bedgraph_matrix: tad_score.gz region: chrX:3250000-3400000 tracks_0|track_file_style_conditional|transform: log1p tracks_0|track_file_style_conditional|show_masked_bins: True tracks_0|track_file_style_conditional|colormap: RdYlBu_r |
attributes: name |
Li_et_al_2015.h5 tad_score.gz name |
| Test-12 |
tracks_0|track_file_style_conditional|title: Kc DpnII (Li et al. 2015) tracks_1|track_file_style_conditional|color_link|color: red tracks_1|track_file_style_conditional|overlay_select: share-y image_file_format: png tracks_2|track_file_style_conditional|track_input_link: test.arcs tracks_2|track_file_style_conditional|track_file_style_selector: link_track_option tracks_1|track_file_style_conditional|color_link|color_link_select: manually tracks_1|track_file_style_conditional|track_file_style_selector: link_track_option tracks_2|track_file_style_conditional|color_link|color: hot tracks_0|track_file_style_conditional|depth: 190000 tracks_2|track_file_style_conditional|height: 5 tracks_2|track_file_style_conditional|invert_orientation: True tracks_0|track_file_style_conditional|matrix_h5_cooler_multiple: Li_et_al_2015.h5 tracks_1|track_file_style_conditional|line_width: 10 tracks_2|track_file_style_conditional|color_link|color_link_select: colormap x_axis|x_axis_select: true tracks_1|track_file_style_conditional|links_type: loops tracks_0|track_file_style_conditional|track_file_style_selector: hic_matrix_option tracks_2|track_file_style_conditional|title: region: chrX:3000000-3300000 tracks_0|track_file_style_conditional|transform: no tracks_1|track_file_style_conditional|title: tracks_0|track_file_style_conditional|colormap: Purples tracks_2|track_file_style_conditional|max_value: 5 tracks_1|track_file_style_conditional|track_input_link: test.arcs |
attributes: name |
Li_et_al_2015.h5 test.arcs name |