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Last pushed: 10 months ago
Short Description
fastqcheck is a program that reads FASTQ files.
Full Description

fastqcheck is a program that reads fastq files (sequencing data:
http://maq.sourceforge.net/fastq.shtml).

It generates statistics about the files (for example, how many reads and bases
there were).

It can be used as a validator of fastq files (though is perhaps stricter that
the spec).

Usage:
$ fastqcheck lane1.fastq > lane1.fastq.fastqcheck
$ gunzip -c lane1.fastq.gz | fastqcheck > lane1.fastq.gz.fastqcheck

Or using Docker:
$ docker run --rm -it -v /home/ubuntu/data:/data sangerpathogens/fastqcheck fastqcheck lane1.fastq > lane1.fastq.fastqcheck

The software is built and installed in the standard manner using configure and make.
Installation instructions are in the INSTALL file.

COPYRIGHT & LICENSE

Copyright (c) 1993, 2006, 2009, 2010, 2013 Genome Research Limited.

This file is part of fastqcheck.

fastqcheck 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 Lhttp://www.gnu.org/licenses/.

The usage of a range of years within a copyright statement contained within this
distribution should be interpreted as being equivalent to a list of years
including the first and last year specified and all consecutive years between
them. For example, a copyright statement that reads 'Copyright (c) 2005, 2007-
2009, 2011-2012' should be interpreted as being identical to a statement that
reads 'Copyright (c) 2005, 2007, 2008, 2009, 2011, 2012' and a copyright
statement that reads "Copyright (c) 2005-2012' should be interpreted as being
identical to a statement that reads 'Copyright (c) 2005, 2006, 2007, 2008, 2009,
2010, 2011, 2012'."

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