fastqcheck is a program that reads fastq files (sequencing data:
It generates statistics about the files (for example, how many reads and bases
It can be used as a validator of fastq files (though is perhaps stricter that
$ 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
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'."