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comparison 16_fgsea/GSEA.xml @ 1:91eed1b5c009 draft

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author dktanwar
date Tue, 12 Dec 2017 21:19:55 -0500
parents b75ceb945966
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0:b75ceb945966 1:91eed1b5c009
1 <tool id="GSEA" name="Gene Set Enrichment Analysis" version="0.1.0"> 1 <tool id="GSEA" name="Gene Set Enrichment Analysis" version="0.1.0">
2 <command detect_errors="exit_code"><![CDATA[ 2
3 Rscript $__tool_directory__/GSEA.R --input1 $Ranked_list --input2 $Pathway_database --output $output 3 <requirements>
4 <requirement type="package" version="1.4.0">bioconductor-fgsea</requirement>
5 <requirement type="package" version="1.20.0">r-getopt</requirement>
6 <!-- required for alpha function used with plotMD -->
7 <requirement type="package" version="0.12.13">r-rcpp</requirement>
8 </requirements>
9
10 <command detect_errors="exit_code"><![CDATA[
11 Rscript '$__tool_directory__/GSEA.R' --input1 '$Ranked_list' --input2 '$Pathway_database' --output '$output'
4 ]]></command> 12 ]]></command>
5 <inputs> 13 <inputs>
6 <param type="data" name="Ranked_list" format="txt" /> 14 <param type="data" name="Ranked_list" format="txt" />
7 <param type="data" name="Pathway_database" format="txt" /> 15 <param type="data" name="Pathway_database" format="txt" />
8 </inputs> 16 </inputs>