| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.7.6+galaxy1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.7.5+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.7.5+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.7.2+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.6+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.6+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.4.3.1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.4.3.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.4.2.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.4.1.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_chicplotviewpoint/hicexplorer_chicplotviewpoint/3.3.1.0 |
| hicexplorer_chicplotviewpoint |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| hicexplorer | 3.7.6 | package |
| Additional information about this tool |
#import re
chicPlotViewpoint
--interactionFile '$interactionFile'
#if $differentialFile:
--differentialTestResult '$differentialFile'
#end if
#if $significantInteractionFile:
--significantInteractions '$significantInteractionFile'
$plotSignificantInteractions
#end if
--range $rangeUpstream $rangeDownstream
#if $backgroundModelFile:
--backgroundModelFile '$backgroundModelFile'
#end if
--combinationMode $combinationMode_conditional.combinationMode_selector
#if $combinationMode_conditional.combinationMode_selector == 'oneGene':
--combinationName $combinationMode_conditional.geneName
#end if
#if $dpi:
--dpi $dpi
#end if
#if $maxPValue:
--maxPValue $maxPValue
#end if
#if $minPValue:
--minPValue $minPValue
#end if
#if $colormap:
--colorMapPvalue $colormap
#end if
$pvalue
#if $xFold:
--xFold $xFold
#end if
--colorList $colorList
--threads \${GALAXY_SLOTS:-4}
$truncateZeroPvalues
-o plots.tar.gz
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
interactionFile: cHi-C/chicViewpoint/two_matrices.hdf5 differentialFile: cHi-C/chicDifferentialTest/differential.hdf5 significantInteractionFile: cHi-C/chicSignificantInteractions/significantInteractions_dual.hdf5 backgroundModelFile: cHi-C/background.txt combinationMode_conditional|combinationMode_selector: dual pvalue: True xFold: 1.5 truncateZeroPvalues: True |
name: value |
cHi-C/chicViewpoint/two_matrices.hdf5 cHi-C/chicDifferentialTest/differential.hdf5 cHi-C/chicSignificantInteractions/significantInteractions_dual.hdf5 cHi-C/background.txt value |