cancerhotspotsAggr: Aggregate cancerhotspots reports

In PoisonAlien/maftools: Summarize, Analyze and Visualize MAF Files

Aggregate cancerhotspots reports

Description

Takes tsv files generated by cancerhotspots and aggregates them into an MAF for downstream analysis

Usage

cancerhotspotsAggr(
  tsvs = NULL,
  minVaf = 0.02,
  minDepth = 15,
  sampleNames = NULL,
  maf = TRUE,
  ...
)

Arguments

tsvs	TSV files generated by cancerhotspots
minVaf	Min. VAF threshold. Default 0.02
minDepth	Min. depth of coverage. Default 15
sampleNames	samples for each tsv file. Default NULL. Parses from file names.
maf	Return as an MAF object. Default TRUE.
...	Additional argumnets passed to read.maf if 'maf' is TRUE.

Value

MAF object

See Also

cancerhotspots

PoisonAlien/maftools documentation built on Nov. 5, 2024, 4:12 p.m.