bin_chromosomes: Split chromosomes into bins

In TearsWillFall/ULPwgs: An implementation of a wrapper for estimating tumor fraction in ultra-low-pass whole genome sequencing (ULP-WGS) for cell-free DNA in GNU/Unix based systems

Split chromosomes into bins

Description

This functions takes a BED file of chromosome positions for BAM file input

Usage

bin_chromosomes(
  bin_samtools = build_default_tool_binary_list()$bin_samtools,
  bam = "",
  verbose = FALSE,
  batch_config = build_default_preprocess_config(),
  bin_size = 4e+07
)

Arguments

bin_samtools	Path to samtools executable. Default path tools/samtools/samtools.
bam	Path to directory with BAM files to merge.
verbose	Enables progress messages. Default False.
bin_size	Bin size. Default 400000000 pb

TearsWillFall/ULPwgs documentation built on April 18, 2024, 3:45 p.m.