createSampleListOld: Creating sample list to run mcapply parallel

In hanielcedraz/baqcomPackage: Functions for BAQCOM pipeline

Creating sample list to run mcapply parallel

Description

Function to create sample list to run mcapply parallel

Usage

createSampleListOld(samples, reads_folder, column = "SAMPLE_ID", fileType = NULL, libraryType = "pairEnd", samplesFromSTAR = FALSE, step = NULL)

Arguments

samples	Character. The filename of the sample file. Default samples.txt.
reads_folder	Character. Directory where the raw sequence data is stored. Default 00-Fastq.
column	Character. Column name from the sample sheet to use as read folder names. Default SAMPLE_ID
fileType	Character. The file type to use. Available: 'fastq.gz', 'bam' or 'sam'. Default NULL
libraryType	Character. The library type to use. Available: 'pairEnd' or 'singleEnd'. Default pairEnd
samplesFromSTAR	logical. Whether want to count reads from STAR mapped files. Default FALSE
step	Character Which step to run, Quality Controls or Mapping. Default NULL

Details

December 2021

Author(s)

Haniel Cedraz

hanielcedraz/baqcomPackage documentation built on June 14, 2022, 12:25 a.m.