Mercurial > repos > fubar > differential_count_models

changeset 105:442d906d8682 draft

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Uploaded
author fubar
date Mon, 03 Mar 2014 00:10:30 -0500
parents 39f7ed5b2fc1
children c612d67e63c2
files rgedgeRpaired_nocamera.xml
diffstat 1 files changed, 3 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/rgedgeRpaired_nocamera.xml	Sun Mar 02 23:45:54 2014 -0500
+++ b/rgedgeRpaired_nocamera.xml	Mon Mar 03 00:10:30 2014 -0500
@@ -1,4 +1,4 @@
-<tool id="rgDifferentialCount" name="Differential_Count" version="0.24">
+<tool id="rgDifferentialCount" name="Differential_Count" version="0.23">
   <description>models using BioConductor packages</description>
   <requirements>
       <requirement type="package" version="2.14">biocbasics</requirement>
@@ -786,7 +786,8 @@
   doGSEA(y=DGEList,design=mydesign,histgmt=histgmt,bigmt=bigmt,ntest=20,myTitle=myTitle,
     outfname=paste(mt,"GSEA.xls",sep="_"),fdrthresh=fdrthresh,fdrtype=fdrtype)
   }
-
+  counts.dataframe = c()
+  vennmain = 'no venn'
   if ((doDESeq2==T) || (doVoom==T) || (doedgeR==T)) {
     if ((doVoom==T) && (doDESeq2==T) && (doedgeR==T)) {
         vennmain = paste(mt,'Voom,edgeR and DESeq2 overlap at FDR=',fdrthresh)