merge_maf: This function merges a group of files in MAF format This...

In TearsWillFall/variantCall: An implementation of a wrapper for variant calling using MuTECT2 and Platypus GNU/Unix based systems

Description

This function merges a group of files in MAF format This function takes the path to the directory with MAF files and concatenates them into a single file

Usage

merge_maf(
  maf_dir = "",
  recursive = FALSE,
  pattern = ".maf",
  threads = 3,
  generate_file = TRUE,
  output_name = "merged",
  output_dir = ""
)

Arguments

maf_dir	Path to maf file dir
recursive	Reads all files in the directory recursively. Default TRUE
pattern	Pattern to identify MAF files with. Default "maf"
threads	Number of threads to use.
generate_file	Generate an output file. Default TRUE
output_name	Output file name without extension. Default "merged"
output_dir	Path to output directory.

TearsWillFall/variantCall documentation built on Oct. 15, 2021, 8:51 p.m.