Included EBSeq for downstream differential expression analysis

[rsem.git] / EBSeq / R / QQP.R

diff --git a/EBSeq/R/QQP.R b/EBSeq/R/QQP.R
new file mode 100644 (file)
index 0000000..686aa92
--- /dev/null
+++ b/EBSeq/R/QQP.R
@@ -0,0 +1,14 @@
+QQP <-
+function(QList,AlphaResult,BetaResult,name,AList="F",GroupName){
+       
+                   for (i in 1:length(BetaResult)){
+                               tmpSize=length(QList[[i]][QList[[i]]<1 & !is.na(QList[[i]])])
+                       if (AList=="F") rdpts=rbeta(tmpSize,AlphaResult,BetaResult[i])
+                               else rdpts=rbeta(tmpSize,AlphaResult[i],BetaResult[i])
+       qqplot(QList[[i]][QList[[i]]<1], rdpts,xlab="estimated q's", ylab="simulated q's from fitted beta",main=paste(name,GroupName[i],sep=" "),xlim=c(0,1),ylim=c(0,1))
+       fit=lm(sort(rdpts)~sort(QList[[i]][QList[[i]]<1  & !is.na(QList[[i]])]))
+       abline(fit,col="red")
+       
+                       }
+}
+