plotTiTv: Plot Transition and Trasnversion ratios.

Description Usage Arguments Value See Also Examples

View source: R/plotTiTv.R

Description

Takes results generated from titv and plots the Ti/Tv ratios and contributions of 6 mutational conversion classes in each sample.

Usage

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plotTiTv(
  res = NULL,
  plotType = "both",
  sampleOrder = NULL,
  color = NULL,
  showBarcodes = FALSE,
  textSize = 0.8,
  baseFontSize = 1,
  axisTextSize = c(1, 1),
  plotNotch = FALSE
)

Arguments

res

results generated by titv

plotType

Can be 'bar', 'box' or 'both'. Defaults to 'both'

sampleOrder

Sample names in which the barplot should be ordered. Default NULL

color

named vector of colors for each coversion class.

showBarcodes

Whether to include sample names for barplot

textSize

fontsize if showBarcodes is TRUE. Deafult 2.

baseFontSize

font size. Deafult 1.

axisTextSize

text size x and y tick labels. Default c(1,1).

plotNotch

logical. Include notch in boxplot.

Value

None.

See Also

titv

Examples

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laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
laml <- read.maf(maf = laml.maf)
laml.titv = titv(maf = laml, useSyn = TRUE)
plotTiTv(laml.titv)

maftools documentation built on Feb. 6, 2021, 2 a.m.