create_bed_file: create_bed_file

View source: R/Create_BED_files.R

create_bed_fileR Documentation

create_bed_file

Description

Creates BED files from the found and not found annotated mutations

Usage

create_bed_file(
match_t,
vcf_fingerprint,
output_file,
ref_gen,
manual_identifier

)

Arguments

match_t

R table which contains the mutations from the training database for the cancer cell lines

vcf_fingerprint

contains the mutations that are present in the query cancer cell line's vcf file

output_file

Path to output file

ref_gen

Reference genome version

manual_identifier

Manually enter a vector of CL name(s) whose bed files should be created, independently from them passing the detection threshold

Value

Returns a message which indicates if the BED file creation has succeeded


RaikOtto/Uniquorn documentation built on Oct. 18, 2022, 1:21 a.m.