Mercurial > repos > enios > nc_rna

diff tcga_heatmap.xml @ 5:b2b5f193f5bd draft

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author enios
date Wed, 21 Apr 2021 10:54:52 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tcga_heatmap.xml	Wed Apr 21 10:54:52 2021 +0000
@@ -0,0 +1,19 @@
+<tool id="tcga_heatmap" name="TCGA_HEATMAP" >
+ <requirements>
+     <container type="docker">bianca7/lncrna:tcga</container>
+ </requirements>
+ <description>Test your signature on TCGA data</description>
+ <stdio>
+   <exit_code range="1:" level="fatal" />
+ </stdio>
+ <command><![CDATA[ Rscript /Heatmap1.R -g "$signature" -c "$cancer_type" -R "/$output1" -o "/$output2"
+  ]]></command>
+  <inputs>
+   <param format="tabular,txt" name="signature" type="data" label="gene signature" />
+   <param name="cancer_type" type="text" label="TCGA-cancer project" />
+ </inputs>
+ <outputs>
+    <data format="pdf" name="output1" label="Heatmap"/>
+    <data format="html" name="output2" label="Heatmap"/>
+ </outputs>
+</tool>