Collection of code for checking NSG sequencing results.
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Contents:
Please see the wiki for details of usage.
build/htstools.sh will build Bio::DB::HTS and samtools but it is primarily included for
the travis build so only use this if you don't already have these installed.
There is a pre-built image containing this codebase on quay.io.
- dockstore-cgpwgs
- Contains additional tools for WGS analysis.
This was primarily designed for use with dockstore.org but can be used as a normal container.
The docker image is know to work correctly after import into a singularity image.
Copyright (c) 2014-2018 Genome Research Ltd.
Author: CASM/Cancer IT <cgphelp@sanger.ac.uk>
This file is part of cgpNgsQc.
cgpNgsQc is free software: you can redistribute it and/or modify it under
the terms of the GNU Affero 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 Affero General Public License for more
details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
1. 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’."