Description Usage Arguments Details Author(s) Examples
Plot signal and breakpoints with segment-level signal estimates
1 2 3 4 |
dat |
A |
breakpoints |
A vector of breakpoints positions, or a |
regNames |
Region labels, a vector of length
|
exclNames |
A vector of column names corresponding to columns that should not be plotted. |
ylabs |
A vector of 'y' labels (column names or indices) that should be plotted. |
ylims |
An optional 2*d matrix with |
binExclPattern |
A vector of column names or indices in
|
col |
Color of plotting symbol, see |
pch |
Plotting symbol, see |
cex |
Magnification factor for plotting symbol, see |
Argument 'binCols' is mainly used to avoid calculating mean levels for allelic ratios, which would not make sense as they are typically multimodal.
Morgane Pierre-Jean and Pierre Neuvial
1 2 3 4 5 6 | affyDat <- acnr::loadCnRegionData(dataSet="GSE29172", tumorFraction=1)
sim <- getCopyNumberDataByResampling(1e4, 5, minLength=100, regData=affyDat)
dat <- sim$profile
res <- PSSeg(dat, method="RBS", stat=c("c", "d"), K=50)
bkpList <- list(true=sim$bkp, est=res$bestSeg)
plotSeg(dat, breakpoints=bkpList)
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