# HG changeset patch
# User trinity_ctat
# Date 1530240326 14400
# Node ID 68c6c52d2ced73adef35cd7efb95f3e83a508d5c
# Parent  ab08b6af771035af094e5c0d297366e064a62c9c
Uploaded

diff -r ab08b6af7710 -r 68c6c52d2ced ctat_analyze_differential_expression.xml
--- a/ctat_analyze_differential_expression.xml	Wed Jun 27 14:10:05 2018 -0400
+++ b/ctat_analyze_differential_expression.xml	Thu Jun 28 22:45:26 2018 -0400
@@ -8,16 +8,18 @@
         <requirement type="package" version="1.3.0">rsem</requirement>
         <requirement type="package" version="3">bioconductor-edger</requirement>
         <requirement type="package" version="2">bioconductor-qvalue</requirement>
+        <requirement type="package">r-cluster</requirement>
+        <requirement type="package">r-fastcluster</requirement>
         <requirement type="package" version="2.6.6">trinity</requirement>
     </requirements>
     <command detect_errors="exit_code">
         <![CDATA[
-        python $__tool_directory__/ctat_analyze_differential_expression.py $EdgeRTarGz $TMM_Matrix_FPKM $Pvalue $Cvalue 
+        python $__tool_directory__/ctat_analyze_differential_expression.py $Counts_matrix $TMM_Matrix_FPKM $Pvalue $Cvalue 
         ]]>
     </command>
     <inputs>
           <param name="EdgeRTarGz" label="EdgeR tar gz file" type="data" format="txt"/>
-          <param name="TMM_Matrix_FPKM" label="TMM Normalized FPKM matrix" type="data" format="tabular" />
+          <param name="Counts_matrix" label="Counts Matrix" type="data" format="tabular" />
 	      <param name="Pvalue" label="P-value" value="0.05" type="float" />
 	      <param name="Cvalue" label="C-value" value="0" type="float" />