comparison coverage_plot.r @ 0:2c498d40ecde

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author miller-lab
date Mon, 09 Apr 2012 12:03:06 -0400
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children 8997f2ca8c7a
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-1:000000000000 0:2c498d40ecde
1 x <- read.table('coverage2.txt', skip=1, sep='\t')
2
3 individuals <- dim(x)[1]
4 max_cov <- dim(x)[2] - 2
5 max_val <- max(x[-1]) / 100
6 colors <- rainbow(individuals)
7
8 line_width = 3
9 xt = t(x)
10
11 xvals <- c(0:max_cov)
12 values <- as.numeric(as.vector(xt[,1][-1]))/100
13
14 pdf(file='coverage.pdf', onefile=TRUE, width=10, height=6);
15
16 plot(xvals, values, type='l', ylim=c(0, max_val), xlim=c(0, max_cov), col=colors[1], lwd=line_width, xlab="Coverage", ylab="Proportion")
17
18 if (individuals > 1) {
19 for (i in 2:individuals) {
20 values <- as.numeric(as.vector(xt[,i][-1]))/100;
21 lines(xvals, values, col=colors[i], lwd=line_width);
22 }
23 }
24
25
26 names <- as.vector(t(x[1]))
27 legend(x='topright', legend=names, fill=colors, bty='n')
28
29 dev.off()
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31