maftools (version 0.99.30)

plotTiTv: Plot Transition and Trasnversion ratios.

Description

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

Usage

plotTiTv(res = NULL, file = NULL, width = 6, height = 5, color = NULL,
  showBarcodes = FALSE, textSize = 2)

Arguments

res

results generated by titv

file

basename for output file name. If given pdf will be generated.

width

width of the plot, in inches.

height

height of the plot, in inches.

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.

Value

None.

See Also

titv

Examples

# NOT RUN {
laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
laml <- read.maf(maf = laml.maf, removeSilent = TRUE, useAll = FALSE)
laml.titv = titv(maf = laml, useSyn = TRUE)
plotTiTv(laml.titv)

# }