rawCounts {msgbsR}R Documentation

rawCounts

Description

Imports the raw read counts from sorted and indexed bam file(s)

Usage

rawCounts(bamFilepath, threads = 1)

Arguments

bamFilepath

The path to the location of the bam file(s).

threads

The total number of usable threads to be used. Default is 1.

Value

Produces a RangedSummarizedExperiment. Columns are samples and the rows are cut sites. The cut site IDs are in the format chr:position-position:strand.

Author(s)

Benjamin Mayne, Sam Buckberry

Examples

my_path <- system.file("extdata", package = "msgbsR")
my_data <- rawCounts(bamFilepath = my_path)

[Package msgbsR version 1.17.0 Index]