getGISTICPeaks {RTCGAToolbox} | R Documentation |
Access GISTIC2 level 4 copy number data through
gdac.broadinstitute.org
getGISTICPeaks(object, peak = c("wide", "narrow", "full"), rm.chrX = TRUE)
object |
A FirehoseData GISTIC type object |
peak |
The peak type, select from "wide", "narrow", "full". |
rm.chrX |
(logical default TRUE) Whether to remove observations in the X chromosome |
A data.frame
of peak values
Ludwig Geistlinger
co <- getFirehoseData("COAD", clinical = FALSE, GISTIC = TRUE) peaks <- getGISTICPeaks(co, "wide") class(peaks) head(peaks)[1:6]