generateOverlapPlot: Function to generate Overlap plot

In MAFDash: Create an HTML Dashboard to Visualize Data from MAF File

Function to generate Overlap plot

Description

This function generates an overlap plot using the MAF data.

Usage

generateOverlapPlot(
  mymaf,
  use_silent_mutations = FALSE,
  summarize_by = "gene",
  plotType = c("ribbon", "heatmap"),
  savename = NULL,
  savewidth = 8,
  saveheight = 8
)

Arguments

mymaf	The MAF object
use_silent_mutations	Flag to use the silent mutations in the plot
summarize_by	Paramter to summarize the data (Either 'gene' or 'mutation'")
plotType	The type of plot generated ("ribbon" or "heatmap" or both)
savename	The name and path of the output file
savewidth	Width of plot
saveheight	Height of plot

Value

No return value, the plot is saved as a pdf

Author(s)

Mayank Tandon, Ashish Jain

Examples

library(MAFDash)
library(maftools)
maf <- system.file("extdata", "test.mutect2.maf.gz", package = "MAFDash")
generateOverlapPlot(read.maf(maf))

MAFDash documentation built on April 1, 2022, 9:05 a.m.