DESCRIPTION

 fastaq_capillary_to_pairs <infile> <outfiles prefix>

Given a fasta/q file of capillary reads, makes an interleaved file of read pairs (where more than read from same ligation, takes the longest read) and a file of unpaired reads. Replaces the .p1k/.q1k part of read names to denote fwd/rev reads with ,/1/ and ,/2/

positional arguments:

infile

Name of input fasta/q file

outfiles prefix

Prefix of output files

optional arguments:

-h, --help

show this help message and exit

AUTHOR

fastaq_capillary_to_pairs was originally written by Martin Hunt ([email protected])

COPYING

Wellcome Trust Sanger Institute Copyright © 2013 Wellcome Trust Sanger Institute 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.