diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 39 |
1 files changed, 37 insertions, 2 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index d4661cf515..58ba2f05d6 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1,10 +1,10 @@ ;;; GNU Guix --- Functional package management for GNU -;;; Copyright © 2014, 2015, 2016, 2017, 2018 Ricardo Wurmus <rekado@elephly.net> +;;; Copyright © 2014, 2015, 2016, 2017, 2018, 2019 Ricardo Wurmus <rekado@elephly.net> ;;; Copyright © 2015, 2016, 2017, 2018 Ben Woodcroft <donttrustben@gmail.com> ;;; Copyright © 2015, 2016 Pjotr Prins <pjotr.guix@thebird.nl> ;;; Copyright © 2015 Andreas Enge <andreas@enge.fr> ;;; Copyright © 2016 Roel Janssen <roel@gnu.org> -;;; Copyright © 2016, 2017, 2018 Efraim Flashner <efraim@flashner.co.il> +;;; Copyright © 2016, 2017, 2018, 2019 Efraim Flashner <efraim@flashner.co.il> ;;; Copyright © 2016 Marius Bakke <mbakke@fastmail.com> ;;; Copyright © 2016, 2018 Raoul Bonnal <ilpuccio.febo@gmail.com> ;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr> @@ -13285,6 +13285,41 @@ descriptive settings file. The result is a set of comprehensive, interactive HTML reports with interesting findings about your samples.") (license license:gpl3+))) +(define-public mantis + (let ((commit "4ffd171632c2cb0056a86d709dfd2bf21bc69b84") + (revision "1")) + (package + (name "mantis") + (version (git-version "0" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/splatlab/mantis.git") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0iqbr0dhmlc8mzpirmm2s4pkzkwdgrcx50yx6cv3wlr2qi064p55")))) + (build-system cmake-build-system) + (arguments '(#:tests? #f)) ; there are none + (inputs + `(("sdsl-lite" ,sdsl-lite) + ("openssl" ,openssl) + ("zlib" ,zlib))) + (home-page "https://github.com/splatlab/mantis") + (synopsis "Large-scale sequence-search index data structure") + (description "Mantis is a space-efficient data structure that can be +used to index thousands of raw-read genomics experiments and facilitate +large-scale sequence searches on those experiments. Mantis uses counting +quotient filters instead of Bloom filters, enabling rapid index builds and +queries, small indexes, and exact results, i.e., no false positives or +negatives. Furthermore, Mantis is also a colored de Bruijn graph +representation, so it supports fast graph traversal and other topological +analyses in addition to large-scale sequence-level searches.") + ;; uses __uint128_t and inline assembly + (supported-systems '("x86_64-linux")) + (license license:bsd-3)))) + (define-public r-diversitree (package (name "r-diversitree") |