plotCNAheatmapWithGoI: plots a heatmap of copy numbers, highlighting genes of...

In ChristofferFlensburg/superFreq: Calls and tracks CNAs, SNVs and clones over multiple cancer exomes.

plots a heatmap of copy numbers, highlighting genes of interest

Description

plots a heatmap of copy numbers, highlighting genes of interest

Usage

plotCNAheatmapWithGoI(
  GoI,
  Rdirectory,
  genome,
  metaDataFile,
  excludeIndividuals = c(),
  excludeSamples = c(),
  GoIakas = c(),
  cpus = 1
)

Arguments

GoI	character vector. Genes of interest.
Rdirectory	character The Rdirectory where the superFreq run was run.
genome	character. The genome the sample is aligned to. 'hg19', 'hg38' or 'mm10'

Details

This function plots a heatmap of copy numbers across the samples and genome. Genes of Interest are highlighted. Can be run after the superFreq run is completed.

ChristofferFlensburg/superFreq documentation built on Nov. 15, 2023, 6:15 a.m.