plotOverviewGISTIC2: Generates an overview of the GISTIC2 copy-number landscape.

In J0bbie/R2CPCT: Misc. functions to perform import and analysis of WGS and RNA-Seq samples

Description

Generates an overview of the GISTIC2 copy-number landscape.

Usage

plotOverviewGISTIC2(
  data.GISTIC,
  maxG = 3,
  minG = -2,
  maxQ = 0.1,
  sizeTrackCN = 15
)

Arguments

data.GISTIC	(list): Output from importGISTIC2.
maxG	(numeric): Cut-off of the max. G-Score.
minG	(numeric): Cut-off of the min. G-Score.
maxQ	(numeric): Which peaks are plotted (max. q-value).
sizeTrackCN	(numeric): Size of the CN track.

Value

(NULL) Plots a Circos figure.

Author(s)

Job van Riet [e-mail]

Examples

 svg(file = 'overviewCNA.svg', width = 8, height = 8, onefile = TRUE)
 plotGISTIC2(data.GISTIC, 2, ,-2, 0.1)
 dev.off()

J0bbie/R2CPCT documentation built on Feb. 24, 2022, 8:15 a.m.