Mercurial > repos > kpbioteam > clusterprofiler_go

diff clusterProfiler_go.xml @ 0:5aba765e27b4 draft

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planemo upload for repository https://github.com/kpbioteam/clusterProfiler_go commit 19aa66aed9f704dc98680d2573ff7b13c81c0ca2
author kpbioteam
date Mon, 19 Mar 2018 14:01:29 -0400
parents
children 49ae9762eb96
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/clusterProfiler_go.xml	Mon Mar 19 14:01:29 2018 -0400
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+<tool id="clusterProfiler_go" name="clusterProfiler_go" version="0.1.0">
+    <description>run GO Analysis</description>
+    <requirements>
+        <requirement type="package" version="3.6.0">bioconductor-clusterprofiler</requirement>
+        <requirement type="package">r-ggplot2</requirement>
+        <requirement type="package" version="3.5.0">bioconductor-org.hs.eg.db</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+        Rscript  ${__tool_directory__}/clusterProfiler_go.R "$input1" "$output1" "$output2"
+    ]]></command>
+    <inputs>
+        <param type="data" name="input1" format="txt" />
+    </inputs>
+    <outputs>
+        <data name="output1" format="txt" />
+        <data name="output2" format="pdf" />
+    </outputs>
+    <tests>
+        <test>
+            <param name="input1" value="genedf.txt"/>
+            <output name="output1" file="ego.txt"/>
+            <output name="output2" file="ego.pdf"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+        This tool provide GO Enrichment Analysis of a gene set. Given a set of genes, this will return the enrichment GO categories after FDR control.
+    ]]></help>
+    <citations>
+        <citation type="doi">10.1089/omi.2011.0118</citation>
+    </citations>
+</tool>
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