pmMultiBarplot: Plot both mutation signatures and their mutational exposures...

In USCbiostats/HiLDA: Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation

Description

Plot both mutation signatures and their mutational exposures from pmsignature output for more than two groups

Usage

pmMultiBarplot(
  inputG,
  inputParam,
  sigOrder = NULL,
  groupIndices,
  sortSampleNum = TRUE,
  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).
groupIndices	a vector of group indicators.
sortSampleNum	an indictor variable on whether samples are sorted by the number of mutations (default: TRUE).
charSize	the size of the character on the signature plot (default: 3)

Value

a list of the signature plot and the mean difference plot.

Examples

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

pmPlots <- pmMultiBarplot(G, Param, groupIndices=c(1, rep(2,3), rep(3,6)))
cowplot::plot_grid(pmPlots$sigPlot, pmPlots$propPlot, rel_widths = c(1,3))

USCbiostats/HiLDA documentation built on Oct. 15, 2021, 10:22 a.m.