Mercurial > repos > trinity_ctat > ctat_analyze_differential_expression

comparison ctat_analyze_differential_expression.xml @ 3:68c6c52d2ced draft

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author trinity_ctat
date Thu, 28 Jun 2018 22:45:26 -0400
parents ab08b6af7710
children b37d57c8ce7e
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2:ab08b6af7710 3:68c6c52d2ced
6 <requirement type="package">subprocess32</requirement> 6 <requirement type="package">subprocess32</requirement>
7 <requirement type="package">bzip2</requirement> 7 <requirement type="package">bzip2</requirement>
8 <requirement type="package" version="1.3.0">rsem</requirement> 8 <requirement type="package" version="1.3.0">rsem</requirement>
9 <requirement type="package" version="3">bioconductor-edger</requirement> 9 <requirement type="package" version="3">bioconductor-edger</requirement>
10 <requirement type="package" version="2">bioconductor-qvalue</requirement> 10 <requirement type="package" version="2">bioconductor-qvalue</requirement>
11 <requirement type="package">r-cluster</requirement>
12 <requirement type="package">r-fastcluster</requirement>
11 <requirement type="package" version="2.6.6">trinity</requirement> 13 <requirement type="package" version="2.6.6">trinity</requirement>
12 </requirements> 14 </requirements>
13 <command detect_errors="exit_code"> 15 <command detect_errors="exit_code">
14 <![CDATA[ 16 <![CDATA[
15 python $__tool_directory__/ctat_analyze_differential_expression.py $EdgeRTarGz $TMM_Matrix_FPKM $Pvalue $Cvalue 17 python $__tool_directory__/ctat_analyze_differential_expression.py $Counts_matrix $TMM_Matrix_FPKM $Pvalue $Cvalue
16 ]]> 18 ]]>
17 </command> 19 </command>
18 <inputs> 20 <inputs>
19 <param name="EdgeRTarGz" label="EdgeR tar gz file" type="data" format="txt"/> 21 <param name="EdgeRTarGz" label="EdgeR tar gz file" type="data" format="txt"/>
20 <param name="TMM_Matrix_FPKM" label="TMM Normalized FPKM matrix" type="data" format="tabular" /> 22 <param name="Counts_matrix" label="Counts Matrix" type="data" format="tabular" />
21 <param name="Pvalue" label="P-value" value="0.05" type="float" /> 23 <param name="Pvalue" label="P-value" value="0.05" type="float" />
22 <param name="Cvalue" label="C-value" value="0" type="float" /> 24 <param name="Cvalue" label="C-value" value="0" type="float" />
23 25
24 </inputs> 26 </inputs>
25 <outputs> 27 <outputs>