| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/2.1.2.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/2.1.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/2.0.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/1.8.1.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/1.8.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/1.7.2.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/1.7.1.0 |
| hicexplorer_hicplottads |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| hicexplorer | 2.1 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
tracks_8|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_0|track_file_style_conditional|title: Kc DpnII (Li et al. 2015) tracks_10|track_file_style_conditional|spacer_width: 0.5 tracks_6|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_10|track_file_style_conditional|track_file_style_selector: spacer_option tracks_11|track_file_style_conditional|title: genes 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_8|track_file_style_conditional|color: red tracks_15|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_2|track_file_style_conditional|title: TAD state tracks_15|track_file_style_conditional|title: bed6 global max row tracks_7|track_file_style_conditional|color: red tracks_9|track_file_style_conditional|type_conditional|width_point: 0.5 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_15|track_file_style_conditional|global_max_row: True tracks_1|track_file_style_conditional|track_file_style_selector: spacer_option x_axis|x_axis_select: yes tracks_0|track_file_style_conditional|matrix_h5_cooler: Li_et_al_2015.h5 tracks_0|track_file_style_conditional|x_labels: True 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_0|track_file_style_conditional|colormap: RdYlBu_r tracks_12|track_file_style_conditional|spacer_width: 1 tracks_4|track_file_style_conditional|spacer_width: 1 tracks_13|track_file_style_conditional|fontsize: 8 tracks_6|track_file_style_conditional|width_bigwig: 4 tracks_13|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_2|track_file_style_conditional|width_chrom: 0.5 tracks_7|track_file_style_conditional|track_file_style_selector: bigwig_track_option tracks_9|track_file_style_conditional|width_bigwig: 4 tracks_15|track_file_style_conditional|fontsize: 10 tracks_13|track_file_style_conditional|track_input_bed: dm3_genes.bed.gz tracks_14|track_file_style_conditional|spacer_width: 1 tracks_7|track_file_style_conditional|type_conditional|type_selector: line_option tracks_7|track_file_style_conditional|width_bigwig: 4 tracks_3|track_file_style_conditional|title: TAD separation score (Ramirez et al.) tracks_13|track_file_style_conditional|width_bed: 3 tracks_8|track_file_style_conditional|type_conditional|width_line: 0.1 tracks_13|track_file_style_conditional|gene_rows: 3 tracks_8|track_file_style_conditional|title: rep 1 test lw=0.2 tracks_13|track_file_style_conditional|title: max num rows 3 tracks_7|track_file_style_conditional|type_conditional|width_line: 1 tracks_3|track_file_style_conditional|track_input_bedgraph: tad_score.gz tracks_7|track_file_style_conditional|title: rep 1 test line tracks_15|track_file_style_conditional|track_input_bed: dm3_genes.bed6.gz tracks_6|track_file_style_conditional|type_conditional|type_selector: fill_option tracks_3|track_file_style_conditional|width_tad: 10 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_2|track_file_style_conditional|labels: False tracks_0|track_file_style_conditional|track_file_style_selector: hic_matrix_option image_file_format: png tracks_9|track_file_style_conditional|type_conditional|type_selector: point_option 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_3|track_file_style_conditional|track_file_style_selector: tad_score_track_option tracks_6|track_file_style_conditional|title: rep 1 test fill tracks_15|track_file_style_conditional|width_bed: 20 tracks_5|track_file_style_conditional|width_bedgraph: 4 region: chrX:3000000-3500000 tracks_16|track_file_style_conditional|track_input_bed: domains.bed tracks_8|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_0|track_file_style_conditional|transform: log1p tracks_11|track_file_style_conditional|track_file_style_selector: gene_track_option tracks_14|track_file_style_conditional|track_file_style_selector: spacer_option tracks_1|track_file_style_conditional|spacer_width: 0.05 tracks_11|track_file_style_conditional|width_bed: 5 tracks_8|track_file_style_conditional|type_conditional|type_selector: line_option tracks_9|track_file_style_conditional|track_input_bigwig: bigwig_chrx_2e6_5e6.bw tracks_8|track_file_style_conditional|width_bigwig: 4 tracks_5|track_file_style_conditional|color: blue tracks_6|track_file_style_conditional|color: blue tracks_12|track_file_style_conditional|track_file_style_selector: spacer_option tracks_11|track_file_style_conditional|fontsize: 10 |
outFileName: master_TADs_plot.png |
Li_et_al_2015.h5 domains.bed tad_classification.bed tad_score.gz bedgraph_chrx_2e6_5e6.bg bigwig_chrx_2e6_5e6.bw bigwig_chrx_2e6_5e6.bw bigwig_chrx_2e6_5e6.bw bigwig_chrx_2e6_5e6.bw dm3_genes.bed.gz dm3_genes.bed.gz dm3_genes.bed6.gz domains.bed master_TADs_plot.png |