pmBarplot {HiLDA}R Documentation

Plot both mutation signatures and their mutational exposures from pmsignature output

Description

Plot both mutation signatures and their mutational exposures from pmsignature output

Usage

pmBarplot(inputG, inputParam, sigOrder = NULL, refGroup = NULL,
  sortSampleNum = TRUE, refName = "Control", altName = "Case",
  charSize = 3)

Arguments

inputG

a MutationFeatureData S4 class output by the pmsignature.

inputParam

a estimatedParameters S4 class output by the pmsignature.

sigOrder

the order of signatures if needed (default: NULL).

refGroup

the samples in the reference group (default: NULL).

sortSampleNum

whether to sort by number of mutations (default: TRUE).

refName

the name of reference group (default: Control).

altName

the name of the other group (default: Case).

charSize

the size of the character on the signature plot (default: 3).

Value

a list of a signature plot and a barplot of mutational exposures

Examples


load(system.file("extdata/sample.rdata", package="HiLDA"))
Param <- pmgetSignature(G, K = 3)

pmPlots <- pmBarplot(G, Param, refGroup=1:4)
cowplot::plot_grid(pmPlots$sigPlot, pmPlots$propPlot, rel_widths = c(1,3))



[Package HiLDA version 1.0.0 Index]