plotGenericSignatures: Plot Generic Signatures or Catalogues

In Nik-Zainal-Group/signature.tools.lib: signature.tools.lib

Plot Generic Signatures or Catalogues

Description

Function to plot one or more signatures or catalogues with an arbitrary number of channels. Channel names will not be plotted and all channels will be plotted as bars of the same colour.

Usage

plotGenericSignatures(
  signature_data_matrix,
  output_file = NULL,
  plot_sum = TRUE,
  overall_title = "",
  add_to_titles = NULL,
  mar = NULL,
  howManyInOnePage = 100,
  ncolumns = 1
)

Arguments

signature_data_matrix	matrix of signatures, signatures as columns and channels as rows
output_file	set output file, should end with ".jpg", "png" or ".pdf". If output_file==null, output will not be to a file, but will still run the plot functions. The option output_file==null can be used to add this plot to a larger output file.
plot_sum	whether the sum of the channels should be plotted. If plotting signatures this should be FALSE, but if plotting sample catalogues, this can be set to TRUE to display the number of mutations in each sample.
overall_title	set the overall title of the plot
mar	set the option par(mar=mar)
howManyInOnePage	how many signatures or catalogues should be plotted on one page. Multiple pages are plotted if more signatures/catalogues to plot have been requested
ncolumns	how many columns should be used to arrange the signatures/catalogues to plot

Nik-Zainal-Group/signature.tools.lib documentation built on April 13, 2025, 5:50 p.m.