| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hichyperoptdetectloops/hicexplorer_hichyperoptDetectLoops/3.7.2+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hichyperoptdetectloops/hicexplorer_hichyperoptDetectLoops/3.6+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hichyperoptdetectloops/hicexplorer_hichyperoptDetectLoops/3.6+galaxy0 |
| hicexplorer_hichyperoptDetectLoops |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| hicexplorer | 3.7.2 | package |
| Additional information about this tool |
ln -s '$matrix_h5_cooler' 'matrix.$matrix_h5_cooler.ext' &&
hicHyperoptDetectLoops
--matrix 'matrix.$matrix_h5_cooler.ext'
#if '$proteinFile':
--proteinFile '$proteinFile'
#end if
#if '$maximumNumberOfLoops':
--maximumNumberOfLoops '$maximumNumberOfLoops'
#end if
#if '$resolution':
--resolution '$resolution'
#end if
#if '$runs':
--runs '$runs'
#end if
#if not $prefixLoop_selector == 'keep':
--chrPrefixLoops $prefixLoop_selector
#end if
--outputFileName hyperopt_result.txt
--threads \${GALAXY_SLOTS:-4}
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
matrix_h5_cooler: small_test_matrix.cool proteinFile: hicValidateLocations/GSM935376_hg19_Gm12878_Smc3.narrowPeak maximumNumberOfLoops: 5 resolution: 2 runs: 5 |
name: value |
small_test_matrix.cool hicValidateLocations/GSM935376_hg19_Gm12878_Smc3.narrowPeak value |