bam_to_insertions_bw: Write a bigwig file of Tn5 insertion depth

In SamBuckberry/RunATAC: Functions for Importing, Processing, Analyzing, Plotting and Reformatting ATAC-seq Data

Description

Write a bigwig file of Tn5 insertion depth

Usage

bam_to_insertions_bw(bam_file, file, yieldSize = 1e+06, scale_cpm = FALSE,
  ...)

Arguments

bam_file	Path to an ATAC-seq paired-end BAM file.
file	Path for output bigwig file. Extension should be .bw or .bigwig.
yieldSize	Number of records to yield each time the file is read from with scanBam. See ?BamFile
scale_cpm	Logical. Should the output be scaled to number of million mapped reads?
...	Arguments for ScanBamParam.

Value

No object is returned. A file is written.

SamBuckberry/RunATAC documentation built on Aug. 2, 2021, 9:54 a.m.