Mercurial > repos > fubar > differential_count_models

diff rgedgeRpaired_nocamera.xml @ 65:675cc60959f0 draft

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author fubar
date Mon, 10 Feb 2014 20:37:26 -0500
parents d4fc5eb21a2e
children 151bf55e018a
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--- a/rgedgeRpaired_nocamera.xml	Mon Feb 10 20:32:57 2014 -0500
+++ b/rgedgeRpaired_nocamera.xml	Mon Feb 10 20:37:26 2014 -0500
@@ -697,7 +697,7 @@
     #newCountDataSet(workCM, group)
     deSeqDatsizefac = estimateSizeFactors(deSEQds)
     deSeqDatdisp = estimateDispersions(deSeqDatsizefac,fitType=DESeq_fitType)
-    resDESeq = nbinomWaldTest(deSeqDatdisp, pAdjustMethod=fdrtype)
+    resDESeq = nbinomWaldTest(deSeqDatdisp)
     rDESeq = as.data.frame(results(resDESeq))
     rDESeq = cbind(Contig=rownames(workCM),rDESeq,NReads=cmrowsums,URL=contigurls)
     srDESeq = rDESeq[order(rDESeq\$pvalue),]