phantomPeakQC: Phantom Peak Quality Control

In mireia-bioinfo/meowmics: What the Package Does (One Line, Title Case)

Phantom Peak Quality Control

Description

Needs gawk unix package installed.

Usage

phantomPeakQC(
  bam_file,
  out_dir = "phantomPeakQC/",
  suffix = ".bam",
  path_phantom = "run_spp.R",
  nthreads = 5
)

Arguments

bam_file	Character with the path of the BAM file.
suffix	Suffix to remove from the bam_file to generate the sample name.
path_phantom	Path to the phantom peak Rscript. Default assumes it is in your PATH.
nthreads	Number of threads to use for the analysis.

Value

Data.frame containing the results of the QC.

mireia-bioinfo/meowmics documentation built on July 29, 2023, 10 p.m.