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view alignvis.r @ 20:16ba480adf96

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author xuebing
date Sat, 31 Mar 2012 08:31:22 -0400
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args <- commandArgs(TRUE)
x <- read.table(args[1])
pdf(args[2])
#visualize the profile with heatmap 
srt <- sort(x[,2],index.return=T) # sort by total number of reads
image(-t(log(as.matrix(x[srt$ix[1:nrow(x)],3:ncol(x)],nc=ncol(x)-2))),col=gray.colors(100))
dev.off()