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02/02: gnu: Add python-deeptools.
From: |
guix-commits |
Subject: |
02/02: gnu: Add python-deeptools. |
Date: |
Mon, 27 Apr 2020 07:43:40 -0400 (EDT) |
roelj pushed a commit to branch master
in repository guix.
commit ccf70a80a12be86ed609ce7d37d3ae32f75edc39
Author: Roel Janssen <address@hidden>
AuthorDate: Mon Apr 27 13:40:00 2020 +0200
gnu: Add python-deeptools.
* gnu/packages/bioinformatics.scm (python-deeptools): New variable.
---
gnu/packages/bioinformatics.scm | 37 ++++++++++++++++++++++++++++++++++++-
1 file changed, 36 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index cd401d9..8ef2880 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3,7 +3,7 @@
;;; Copyright © 2015, 2016, 2017, 2018 Ben Woodcroft <address@hidden>
;;; Copyright © 2015, 2016 Pjotr Prins <address@hidden>
;;; Copyright © 2015 Andreas Enge <address@hidden>
-;;; Copyright © 2016 Roel Janssen <address@hidden>
+;;; Copyright © 2016, 2020 Roel Janssen <address@hidden>
;;; Copyright © 2016, 2017, 2018, 2019, 2020 Efraim Flashner <address@hidden>
;;; Copyright © 2016, 2020 Marius Bakke <address@hidden>
;;; Copyright © 2016, 2018 Raoul Bonnal <address@hidden>
@@ -2355,6 +2355,41 @@ interval trees with associated meta-data. It is
primarily used by the
@code{deeptools} package.")
(license license:expat)))
+(define-public python-deeptools
+ (package
+ (name "python-deeptools")
+ (version "3.4.3")
+ (source (origin
+ (method url-fetch)
+ (uri (pypi-uri "deepTools" version))
+ (sha256
+ (base32
+ "1azgjniss5ff6a90nicdjkxyjwqmi3gzfn09gra42hwlz19hipxb"))))
+ (build-system python-build-system)
+ (propagated-inputs
+ `(("python-matplotlib" ,python-matplotlib)
+ ("python-numpy" ,python-numpy)
+ ("python-numpydoc" ,python-numpydoc)
+ ("python-py2bit" ,python-py2bit)
+ ("python-pybigwig" ,python-pybigwig)
+ ("python-pysam" ,python-pysam)
+ ("python-scipy" ,python-scipy)
+ ("python-deeptoolsintervals" ,python-deeptoolsintervals)
+ ("python-plotly" ,python-plotly)))
+ (home-page "https://pypi.org/project/deepTools/")
+ (synopsis "Useful tools for exploring deep sequencing data")
+ (description "This package addresses the challenge of handling large
amounts
+of data that are now routinely generated from DNA sequencing centers.
+@code{deepTools} contains useful modules to process the mapped reads data for
+multiple quality checks, creating normalized coverage files in standard
bedGraph
+and bigWig file formats, that allow comparison between different files.
Finally,
+using such normalized and standardized files, deepTools can create many
+publication-ready visualizations to identify enrichments and for functional
+annotations of the genome.")
+ ;; The file deeptools/cm.py is licensed under the BSD license. The
+ ;; remainder of the code is licensed under the MIT license.
+ (license (list license:bsd-3 license:expat))))
+
(define-public cutadapt
(package
(name "cutadapt")