fq_deinterleave - de-interleave paired FASTQ files
This documentation refers to v0.202
fq_deinterleave [--check] reads1 reads2 < interleaved_reads
A simple script to de-interleave (i.e. split) an interleaved FASTQ input into two paired FASTQ files. Interleaved data is read from STDIN, and the names of the two output files are the two required arguments.
Name of output file for forward reads (required)
Name of output file for reverse reads (required)
Name of input file to read from (instead of default STDIN)
Check each pair of input reads to make sure names match (slower but more rigorous)
Force overwrite of output files even if they exist
Do not strip /1 and /2 suffixes from read IDs. These are generally added during interleaving and should be stripped off, but setting this flag will preserve the read IDs exactly.
As yet undiscovered. Please reports bugs to the GitHub repository issue tracker.
Jeremy Volkening (jeremy.volkening@base2bio.com)
Copyright 2014-2023 Jeremy Volkening
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.