plotAllCNVs {CNVfilteR}R Documentation

plotAllCNVs

Description

Plots all CNVs on chromosome ideograms

Usage

plotAllCNVs(cnvs.gr)

Arguments

cnvs.gr

GRanges containing al CNV definitions returned by filterCNVs or loadCNVcalls functions.

Details

Plots all CNVs defined at cnvs.gr on a view of horizontal ideograms representing all chromosomes.

Value

invisibly returns a karyoplot object

Examples

cnvs.file <- system.file("extdata", "DECoN.CNVcalls.2.csv", package = "CNVfilteR", mustWork = TRUE)
cnvs.gr <- loadCNVcalls(cnvs.file = cnvs.file, chr.column = "Chromosome", start.column = "Start", end.column = "End", cnv.column = "CNV.type", sample.column = "Sample")

# Plot all CNVs
plotAllCNVs(cnvs.gr)



[Package CNVfilteR version 1.2.0 Index]