DESCRIPTION

 fastaq_get_seq_flanking_gaps [options] <fasta/q in> <fasta/q out>

Gets the sequences either side of gaps in a fasta/q file

positional arguments:

infile

Name of input fasta/q file

outfile

Name of output fasta/q file

optional arguments:

-h, --help

show this help message and exit

--left INT

Number of bases to get to left of gap [25]

--right INT

Number of bases to get to right of gap [25]

AUTHOR

fastaq_get_seq_flanking_gaps 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.