Mercurial > repos > yufei-luo > s_mart

comparison SMART/DiffExpAnal/DESeqTools/plotDispEstimates.R @ 18:94ab73e8a190

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author m-zytnicki
date Mon, 29 Apr 2013 03:20:15 -0400
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17:b0e8584489e6 18:94ab73e8a190
1 # plotDispEstimates
2 # scatter plots representing dispersion estimates vs mean expression
3
4 # input : cds, OUT_plotDispEstimatesName
5 # output : scatterplot (png)
6
7 plotDispEstimates <- function( cds, OUT_plotDispEstimatesName, out = TRUE ){
8
9 if (out) png( file=OUT_plotDispEstimatesName )
10
11 plot(
12 rowMeans( counts(cds, normalized=T) ),
13 fitInfo(cds)$perGeneDispEsts,
14 pch=".", log="xy",
15 xlab = "Mean expression strength", ylab = "Dispersion estimate" )
16
17 xg <- 10^seq(-.5, 5, length.out=300)
18 lines( xg, fitInfo(cds)$dispFun(xg), col="red" )
19
20 if (out) dev.off()
21 }