Description Usage Arguments Value Author(s) See Also Examples
This function is a wrapper for convenient use of the CBS
segmentation
method by PSSeg
. It applies the
segment
function and reshapes the results
1 |
y |
A numeric vector, the signal to be segmented |
... |
Arguments to be passed to |
verbose |
A |
A list with a single element:
breakpoint positions
Morgane Pierre-Jean and Pierre Neuvial
1 2 3 4 5 6 7 8 9 10 11 12 13 | ## load known real copy number regions
affyDat <- acnr::loadCnRegionData(dataSet="GSE29172", tumorFraction=1)
## generate a synthetic CN profile
K <- 10
len <- 1e4
sim <- getCopyNumberDataByResampling(len, K, minLength=100, regData=affyDat)
datS <- sim$profile
## run CBS segmentation
res <- doCBS(datS[["c"]])
getTpFp(res$bkp, sim$bkp, tol=5, relax = -1) ## true and false positives
plotSeg(datS, breakpoints=list(sim$bkp, res$bkp))
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