Mercurial > repos > yufei-luo > s_mart

diff smart_toolShed/SMART/galaxy/DiffExpAnal.xml @ 0:e0f8dcca02ed

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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
author yufei-luo
date Thu, 17 Jan 2013 10:52:14 -0500
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/smart_toolShed/SMART/galaxy/DiffExpAnal.xml	Thu Jan 17 10:52:14 2013 -0500
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+<tool id="testDiffExpAnal" name="Differential Expression Analysis">
+  <description>Differential expression analysis for sequence count data</description>
+  <command interpreter="sh"> ../DiffExpAnal/testR.sh $inputFile $columnsOfGeneName $columnsOfCondition1 $columnsOfCondition2 $outputFileCSV $outputFilePNG 2>$outputLog </command>
+  <inputs>
+    <param name="inputFile" type="data" label="Input File" format="tabular"/>
+	<param name="columnsOfGeneName" type="text" value="0" label="Please indicate the column numbers of gene names with ',' separator. If There are not gene names, default value is 0."/>
+	<param name="columnsOfCondition1" type="text" value="1,2" label="Please indicate the column numbers of condition1 with ',' separator."/>
+	<param name="columnsOfCondition2" type="text" value="3,4" label="Please indicate the column numbers of condition2 with ',' separator."/>
+  </inputs>
+
+  <outputs>
+    <data format="tabular" name="outputFileCSV" label="[DiffExpAnal] Output CSV File"/>
+	<data format="png" name="outputFilePNG" label="[DiffExpAnal] Output PNG File"/>
+    <data format="tabular" name="outputLog" label="[DiffExpAnal] Log File"/>
+  </outputs>
+
+  <help>
+  </help>
+</tool>