RscoreTrack: RscoreTrack

In BubbleTree: BubbleTree: an intuitive visualization to elucidate tumoral aneuploidy and clonality in somatic mosaicism using next generation sequencing data

Description

get the RScore track

Usage

RscoreTrack(.Object, result.dat, gr2, cnv.gr = NULL, min.prev = 0.15,
  ymax = 3, cex = 1.5)

## S4 method for signature 'TrackPlotter'
RscoreTrack(.Object, result.dat, gr2, cnv.gr = NULL,
  min.prev = 0.15, ymax = 3, cex = 1.5)

Arguments

.Object	the object
result.dat	the results
gr2	the gr2 object
cnv.gr	cnv annotation
min.prev	previous min
ymax	max y
cex	the cex

Value

the highlighted RScore track

Examples

load(system.file("data", "allCall.lst.RData", package="BubbleTree"))
load(system.file("data", "centromere.dat.rda", package="BubbleTree"))
load(system.file("data", "allCNV.lst.RData", package="BubbleTree"))
load(system.file("data", "hg19.seqinfo.rda", package="BubbleTree"))

gr2 = centromere.dat
trackplotter <- new("TrackPlotter")
nn <- "sam2"
z <- RscoreTrack(trackplotter, allCall.lst[[nn]]@result, gr2, allCNV.lst[[nn]])

BubbleTree documentation built on Nov. 8, 2020, 8:22 p.m.