cnSegmentation {sesame} | R Documentation |
Perform copy number segmentation using the signals in the signal set.
The function takes a SigSet
for the target sample and a set of
normal SigSet
for the normal samples. An optional arguments specifies
the version of genome build that the inference will operate on. The function
outputs an object of class CNSegment
with signals for the segments (
seg.signals), the bin coordinates (
bin.coords) and bin signals (bin.signals).
cnSegmentation(sset, ssets.normal, refversion = c("hg19", "hg38"))
sset |
|
ssets.normal |
|
refversion |
hg19 or hg38 |
an object of CNSegment
sesameDataCache("EPIC") # in case not done yet sset <- sesameDataGet('EPIC.1.LNCaP')$sset ssets.normal <- sesameDataGet('EPIC.5.normal') seg <- cnSegmentation(sset, ssets.normal)