view coverage_plot.r @ 17:a3af29edcce2

Uploaded Miller Lab Devshed version a51c894f5bed

x <- read.table('coverage2.txt', skip=1, sep='\t')

individuals <- dim(x)[1]
max_cov <- dim(x)[2] - 2
max_val <- max(x[-1]) / 100
colors <- rainbow(individuals)

line_width = 3
xt = t(x)

xvals <- c(0:max_cov)
values <- as.numeric(as.vector(xt[,1][-1]))/100

pdf(file='coverage.pdf', onefile=TRUE, width=10, height=6);

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")

if (individuals > 1) {
    for (i in 2:individuals) {
        values <- as.numeric(as.vector(xt[,i][-1]))/100;
        lines(xvals, values, col=colors[i], lwd=line_width);
    }
}


names <- as.vector(t(x[1]))
legend(x='topright', legend=names, fill=colors, bty='n')

dev.off()