.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.46.4.
.TH FASTAQ_CHUNKER "1" "October 2014" "Fastaq" "Fastaq executables"
.SH NAME
fastaq_chunker
.SH DESCRIPTION
 fastaq_chunker [options] <fasta/q in> <prefix of output files> <chunk size> <tolerance>
.PP
Splits a multi fasta/q file into separate files. Splits sequences into chunks
of a fixed size. Aims for chunk_size chunks in each file, but allows a little
extra, so chunk can be up to (chunk_size + tolerance), to prevent tiny chunks
made from the ends of sequences
.SS "positional arguments:"
.TP
infile
Name of input fasta/q file to be split
.TP
outprefix
Name of output fasta/q file
.TP
chunk_size
Size of each chunk
.TP
tolerance
Tolerance allowed in chunk size
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.TP
\fB\-\-skip_all_Ns\fR
Do not output any sequence that consists of all Ns


.SH "AUTHOR"
.sp
fastaq_chunker 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\&.