clipFastqFile: Clip Bases from FASTQ reads

Description Usage Arguments Details Value

Description

Clip (trim) bases from the 5' and/or 3' ends of reads in a FASTQ file

Usage

1
clipFastq(filein, fileout, clip5prime = 0, clip3prime = 0)

Arguments

filein

Existing FASTQ file of reads and quality scores

fileout

New created FASTQ file with shorter reads and quality scores

clip5prime

number of bases to trim from the 5' end (high quality, front)

clip3prime

number of bases to trim from the 3' end (low quality, tail)

Details

Overwrites the new output file if it already exists. Either file may be compressed if the given file suffix ends with .gz

Value

No return value. Creates a new FASTQ file with the same number of reads.


robertdouglasmorrison/DuffyTools documentation built on Dec. 14, 2018, 3:05 p.m.