plotSample: Plot timing

In gerstung-lab/MutationTimeR: Timing somatic point mutations and copy number gains

Description

Plot timing

Usage

plotSample(
  vcf,
  cn,
  sv = NULL,
  title = "",
  regions = NULL,
  ylim.cn = c(0, 5),
  layout.height = c(4, 1.2, 3.5),
  y.sv = ylim.cn[2] - 1
)

Arguments

vcf	The 'VCF' file to plot, with timing information added
cn	The copy number 'GRanges' object
sv	Optional structural variants information.
title	The titel of the plot. Default = "".
regions	The region to show as a 'GRanges' object. Default is to show all chromosomes.
ylim.cn	The y-limits for the copy number stacked bar plot.
layout.height	The relative proportions of the layout.
y.sv	Where to plot arches for SVs.

Author(s)

mg14

gerstung-lab/MutationTimeR documentation built on Dec. 12, 2020, 9:29 p.m.