diff survival_M.R @ 1:2d8f37e3b774 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/survival_M.R	Wed Jun 17 14:22:50 2020 +0000
@@ -0,0 +1,30 @@
+#!/usr/bin/env Rscript
+args <- commandArgs(trailingOnly = TRUE)
+fileR=args[1]
+fileT=args[2]
+ofile=args[3]
+data_R=read.table(fileR,header=T)
+data_T=read.table(fileT,header=T)
+
+#P=wilcox.test(data_R$Score,data_T$Score,alternative="gr")$p.value
+range= rev(seq(min(data_R$VINYL_score),max(data_R$VINYL_score),0.5))
+header=paste("Cut-off","PosD","PosH","FisherPV","OR",sep="\t");
+cat(header,file=ofile,sep="\n",append=T)
+
+m=matrix(ncol=2,nrow=2)
+totR=nrow(data_R)
+totT=nrow(data_T)
+for (r in range)
+{
+	posR=sum(data_R$VINYL_score>=r);
+	posT=sum(data_T$VINYL_score>=r);
+	m[,1]=c(posR,totR);
+	m[,2]=c(posT,totT);
+	
+	F=fisher.test(m,alternative="greater")
+	Fpv=F$p.value
+	Fodds=F$estimate
+
+	string=paste(r,posR,posT,Fpv,Fodds,sep="\t")
+	cat(string,file=ofile,sep="\n",append=T)
+}