.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.46.4.
.TH FASTAQ_GET_SEQ_FLANKING_GAPS "1" "October 2014" "Fastaq" "Fastaq executables"
.SH NAME
fastaq_get_seq_flanking_gaps
.SH DESCRIPTION
 fastaq_get_seq_flanking_gaps [options] <fasta/q in> <fasta/q out>
.PP
Gets the sequences either side of gaps in a fasta/q file
.SS "positional arguments:"
.TP
infile
Name of input fasta/q file
.TP
outfile
Name of output fasta/q file
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-\-left\fR INT
Number of bases to get to left of gap [25]
.TP
\fB\-\-right\fR INT
Number of bases to get to right of gap [25]


.SH "AUTHOR"
.sp
fastaq_get_seq_flanking_gaps was originally written by Martin Hunt (mh12@sanger.ac.uk)

.SH "COPYING"
.sp
Wellcome Trust Sanger Institute Copyright \(co 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\&.