read_idxstats: Read samtools idxstats output

In HuntsmanCancerInstitute/hciR: RNA-seq workflows at HCI

Read samtools idxstats output

Description

Read mapped reads by sequence in samtools idxstats output

Usage

read_idxstats(path = ".", pattern, reshape = FALSE, fragment = FALSE)

Arguments

path	the path to idxstats output files, the default corresponds to the working directory.
pattern	regular expression for file name matching, default .idxstats
reshape	reshape mapped reads into wide format with samples in rows
fragment	keep sequence names like GL000008.2 with 8 or more characters

Value

A tibble

Author(s)

Chris Stubben

Examples

## Not run: 
   read_idxstats( pattern = "idxstats.txt$")

## End(Not run)

HuntsmanCancerInstitute/hciR documentation built on Aug. 20, 2024, 12:22 a.m.