# HG changeset patch # User iuc # Date 1513459853 18000 # Node ID fd5e51d2b558895571e3e3e16acda766af38621d # Parent 00855c36a2cbc4a9063319118b1462560c6be3df planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit dfa5a68cb20842407941c7ffda9ef956a0e86a04 diff -r 00855c36a2cb -r fd5e51d2b558 hicPlotMatrix.xml --- a/hicPlotMatrix.xml Mon Nov 27 11:16:12 2017 -0500 +++ b/hicPlotMatrix.xml Sat Dec 16 16:30:53 2017 -0500 @@ -1,4 +1,4 @@ - + Plots a HiC matrix heatmap hicPlotMatrix @@ -26,7 +26,7 @@ $perChromosome $clearMaskedBins - --whatToShow '$whatToShow.whatToShow_select' + --whatToShow heatmap ## special: --chromosomeOrder is optional, but if given needs at least one argument @@ -57,11 +57,6 @@ --vMax $vMax #end if - #if $whatToShow.whatToShow_select != 'heatmap': - #if $whatToShow.zMax: - --zMax $whatToShow.zMax - #end if - #end if && mv plot.$image_file_format plot ]]> @@ -75,21 +70,6 @@ - - - - - - - - - - - - - - - @@ -102,7 +82,7 @@ - + @@ -127,17 +107,55 @@ - + `_ in 2009, `GSE18199 `_. + +.. image:: $PATH_TO_IMAGES/SRR0279XX_perChr_eigenvector1.png + :width: 70 % + +| For more information about HiCExplorer please consider our documentation on readthedocs.io_ + +.. _readthedocs.io: http://hicexplorer.readthedocs.io/en/latest/index.html +.. _Colormaps: https://matplotlib.org/examples/color/colormaps_reference.html ]]> diff -r 00855c36a2cb -r fd5e51d2b558 macros.xml --- a/macros.xml Mon Nov 27 11:16:12 2017 -0500 +++ b/macros.xml Sat Dec 16 16:30:53 2017 -0500 @@ -21,7 +21,7 @@ - + diff -r 00855c36a2cb -r fd5e51d2b558 static/images/SRR027956.svg --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/static/images/SRR027956.svg Sat Dec 16 16:30:53 2017 -0500 @@ -0,0 +1,678 @@ + + + + diff -r 00855c36a2cb -r fd5e51d2b558 static/images/SRR0279XX_perChr_eigenvector1.png Binary file static/images/SRR0279XX_perChr_eigenvector1.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/diagnostic_plot.png Binary file static/images/diagnostic_plot.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicCorrelate_pearson.png Binary file static/images/hicCorrelate_pearson.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicCorrelate_pearson_scatter.png Binary file static/images/hicCorrelate_pearson_scatter.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicCorrelate_spearman.png Binary file static/images/hicCorrelate_spearman.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicCorrelate_spearman_scatter.png Binary file static/images/hicCorrelate_spearman_scatter.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicPlotDistVsCounts_result1.png Binary file static/images/hicPlotDistVsCounts_result1.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicPlotDistVsCounts_result2.png Binary file static/images/hicPlotDistVsCounts_result2.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/hicQC.png Binary file static/images/hicQC.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/master_TADs_plot.png Binary file static/images/master_TADs_plot.png has changed diff -r 00855c36a2cb -r fd5e51d2b558 static/images/z-score.svg --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/static/images/z-score.svg Sat Dec 16 16:30:53 2017 -0500 @@ -0,0 +1,27 @@ + + + \ No newline at end of file