Mercurial > repos > bgruening > deeptools_plot_correlation
comparison plotCorrelation.xml @ 36:659b08d0c4b1 draft
planemo upload for repository https://github.com/deeptools/deepTools/tree/master/galaxy/wrapper/ commit 3024062b63fdc502b46e4f328083493c2274182a
| author | bgruening |
|---|---|
| date | Tue, 21 Aug 2018 16:32:50 -0400 |
| parents | bf98fa19b73a |
| children | 7f7a2ae8a310 |
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| 35:bf98fa19b73a | 36:659b08d0c4b1 |
|---|---|
| 1 <tool id="deeptools_plot_correlation" name="plotCorrelation" version="@WRAPPER_VERSION@.0"> | 1 <tool id="deeptools_plot_correlation" name="plotCorrelation" version="@WRAPPER_VERSION@.0" profile="18.01"> |
| 2 <description>Create a heatmap or scatterplot of correlation scores between different samples </description> | 2 <description>Create a heatmap or scatterplot of correlation scores between different samples </description> |
| 3 <macros> | 3 <macros> |
| 4 <token name="@BINARY@">plotCorrelation</token> | 4 <token name="@BINARY@">plotCorrelation</token> |
| 5 <import>deepTools_macros.xml</import> | 5 <import>deepTools_macros.xml</import> |
| 6 </macros> | 6 </macros> |
| 16 @HEATMAP_OPTIONS@ | 16 @HEATMAP_OPTIONS@ |
| 17 --plotWidth $plotting_type.plotWidth | 17 --plotWidth $plotting_type.plotWidth |
| 18 --plotHeight $plotting_type.plotHeight | 18 --plotHeight $plotting_type.plotHeight |
| 19 #else: | 19 #else: |
| 20 --plotTitle '$plotting_type.plotTitle' | 20 --plotTitle '$plotting_type.plotTitle' |
| 21 #if str($plotting_type.maxRange) != '': | 21 #if str($plotting_type.xRange) != '': |
| 22 --maxRange '$plotting_type.maxRange' | 22 --xRange '$plotting_type.xRange' |
| 23 #end if | |
| 24 #if str($plotting_type.yRange) != '': | |
| 25 --yRange '$plotting_type.yRange' | |
| 23 #end if | 26 #end if |
| 24 $plotting_type.log1p | 27 $plotting_type.log1p |
| 25 #end if | 28 #end if |
| 26 $skipZeros | 29 $skipZeros |
| 27 --plotFileFormat '$outFileFormat' | 30 --plotFileFormat '$outFileFormat' |
| 45 <expand macro="heatmap_options" /> | 48 <expand macro="heatmap_options" /> |
| 46 <expand macro="plotWidthHeight" PLOTWIDTH="11.0" PLOTHEIGHT="9.5" /> | 49 <expand macro="plotWidthHeight" PLOTWIDTH="11.0" PLOTHEIGHT="9.5" /> |
| 47 </when> | 50 </when> |
| 48 <when value="scatterplot"> | 51 <when value="scatterplot"> |
| 49 <expand macro="plotTitle" /> | 52 <expand macro="plotTitle" /> |
| 50 <param argument="--maxRange" type="integer" value="" optional="true" | 53 <param argument="--xRange" type="text" value="" optional="true" |
| 51 label="Maximum Range" | 54 label="X axis range" |
| 52 help="Maximum (integer) value for the X and Y axes. The default scales these such that the full range of dots is displayed. If you specify --log1p, please ensure that this value is within the range it will produce." /> | 55 help="X axis range, the default scales these such that the full range of dots is displayed. The input should be two integers separated by a space." /> |
| 56 <param argument="--yRange" type="text" value="" optional="true" | |
| 57 label="Y axis range" | |
| 58 help="Y axis range, the default scales these such that the full range of dots is displayed. The input should be two integers separated by a space." /> | |
| 53 <param argument="--log1p" type="boolean" truevalue="--log1p" falsevalue="" | 59 <param argument="--log1p" type="boolean" truevalue="--log1p" falsevalue="" |
| 54 label="Log transform" | 60 label="Log transform" |
| 55 help="Plot the natural log of the scatter plot after adding 1. Note that this is ONLY for plotting, the correlation is unaffected." /> | 61 help="Plot the natural log of the scatter plot after adding 1. Note that this is ONLY for plotting, the correlation is unaffected." /> |
| 56 </when> | 62 </when> |
| 57 </conditional> | 63 </conditional> |