cghMCR-class {cghMCR} | R Documentation |
Objects of this class provides the functionalities to detecting chromosome regions that show gains or losses across differnet samples
Objects can be created by calls of the form new("cghMCR", ...)
.
A constructor cghMCR
may be used to instantiate object
of this class
DNASeg
:"data.frame"
containing
segmentation data derived from segmentation analysis using segment
or getSegments
margin
:"numeric"
indicating
how far apart two adjacent segments are allowed to be considered
to be of the same locusgain.threshold
:"numeric"
specificing the value of log2 ratio for chromosome gainsloss.threshold
:"numeric"
specificing the value of negative log2 ratio for chromosome lossessignature(object = "cghMCR")
: identifies minimum
common regions of gains/losses across samplesThe function is a contribution of The Center for Applied Cancer Science of Dana-Farber Cancer Institute
Jianhua Zhang
require("cghMCR") data("sampleData") segments <- getSegments(sampleData) cghmcr <- cghMCR(segments, margin = 0, gain.threshold = 0.8, loss.threshold = -0.8)