MicroSEC (version 2.1.6)

fun_load_mutation: Mutation data file loader

Description

This function attempts to load the mutation information file.

Usage

fun_load_mutation(
  mutation_file,
  sample_name,
  ref_genome,
  chr_no,
  simple_repeat_list = ""
)

Value

df_mutation

Arguments

mutation_file

Path of the mutation information file.

sample_name

Sample name.

ref_genome

Reference genome for the data.

chr_no

Reference genome chromosome number (human=24, mouse=22).

simple_repeat_list

Optional, set simple repeat bed file path.

Examples

fun_load_mutation(
  system.file("extdata", "mutation_list.tsv", package = "MicroSEC"),
  "sample",
  BSgenome.Hsapiens.UCSC.hg38::BSgenome.Hsapiens.UCSC.hg38,
  24
)