preprocessInput_sv: preprocessInput_sv

In FunGeST/Palimpsest: Package

preprocessInput_sv

Description

Annotating the mutation data with necessary fields for further analysis

Usage

preprocessInput_sv(
  input_data = NULL,
  Sample.col = "Sample",
  CHROM_1.col = "CHROM_1",
  CHROM_2.col = "CHROM_2",
  POS_1.col = "POS_1",
  POS_2.col = "POS_2",
  type.col = "Type",
  resdir = resdir,
  genome_build = "hg19"
)

Arguments

input_data	Table describing somatic structural rearrangements.
resdir	Results directory where graphical outputs should be exported.
ensgene	Gene table for annotations. A table of Ensembl genes is provided with the package.

FunGeST/Palimpsest documentation built on June 2, 2024, 4:21 a.m.