legoplot: Legoplot exihibition of 96 mutational categories.

In lixiangchun/lxctk: Li Xiangchun's tool-kit (lxctk)

Description

Legoplot exihibition of 96 mutational categories.

Usage

legoplot(originalGenomes_file, counts=NULL, alpha=0.8, scalez=0.15, gap=0.1, contexts_file=system.file('data/contexts.txt',package='lxctk'), snapshot_fig, piechart_fig)

Arguments

originalGenomes_file	Input file generated by decipherMutationalSignatures (https://github.com/lixiangchun/decipherMutationalSignatures).
counts	A numeric vector, i.e. rowSums of originalGenomes_file. If provided, originalGenomes_file is ignored.
alpha	Transparency.
scalez	Magnitude scaling of z-axis.
gap	Gap between barplots.
contexts_file	Leave it unchanged.
snapshot_fig	PNG snapshot of legoplot.
piechart_fig	PDF output file for the pie chart.

Details

See the following example for more info about inputs.

See Also

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Examples

library(lxctk)
legoplot(system.file('data/stad_regular_GC_originalGenomes.txt', package="lxctk"))

lixiangchun/lxctk documentation built on May 21, 2019, 6:44 a.m.