calculate_genowide_coverage: Calculate Genome-wide coverage for a BAM file

In TearsWillFall/tfProfiling: An implementation of PeterUlz (https://github.com/PeterUlz/TranscriptionFactorProfiling) TranscriptionFactorProfiling pipeline in R for GNU/Unix based systems

Description

This function takes a BAM file and generates a TXT file with its genome-wide coverage

Usage

calculate_genowide_coverage(
  bin_path = "tools/bedtools2/bin/bedtools",
  bam = "",
  verbose = FALSE,
  output_dir = ""
)

Arguments

bin_path	Path to binary. Default tools/bedtools2/bin/bedtools
bam	Path to BAM file.
verbose	Enables progress messages. Default FALSE.
output_dir	Directory to output results. If not provided then outputs in current directory

TearsWillFall/tfProfiling documentation built on Aug. 7, 2021, 9:40 a.m.