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authorRicardo Wurmus <rekado@elephly.net>2020-04-28 12:23:13 +0200
committerRicardo Wurmus <rekado@elephly.net>2020-04-28 12:23:28 +0200
commit545e12f40dcd8cfc779e8802dadead7a7cdc8364 (patch)
tree72cc542c1d5cfa261a2be84a6963215bd953d8fc /gnu
parent0b2c88382830e281912cc04867f45e15c2f9657f (diff)
gnu: Add variant-tools.
* gnu/packages/bioinformatics.scm (variant-tools): New variable.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm40
1 files changed, 40 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 48b4ade7d8..f90a0bf90c 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9158,6 +9158,46 @@ samples into a single report. It contains modules for a large number of
common bioinformatics tools.")
(license license:gpl3+)))
+(define-public variant-tools
+ (package
+ (name "variant-tools")
+ (version "3.1.2")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/vatlab/varianttools.git")
+ ;; There is no tag corresponding to version 3.1.2
+ (commit "813ae4a90d25b69abc8a40f4f70441fe09015249")))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "12ibdmksj7icyqhks4xyvd61bygk4pjmxn618kp6vgk1af01y34g"))))
+ (build-system python-build-system)
+ (inputs
+ `(("boost" ,boost)
+ ("c-blosc" ,c-blosc)
+ ("gsl" ,gsl)
+ ("hdf5" ,hdf5)
+ ("hdf5-blosc" ,hdf5-blosc)
+ ("python-cython" ,python-cython)
+ ("zlib" ,zlib)))
+ (propagated-inputs
+ `(("python-numpy" ,python-numpy)
+ ("python-pycurl" ,python-pycurl)
+ ("python-pyzmq" ,python-pyzmq)
+ ("python-scipy" ,python-scipy)
+ ("python-tables" ,python-tables)))
+ (home-page "https://vatlab.github.io/vat-docs/")
+ (synopsis "Analyze genetic variants from Next-Gen sequencing studies")
+ (description
+ "Variant tools is a tool for the manipulation, annotation,
+selection, simulation, and analysis of variants in the context of next-gen
+sequencing analysis. Unlike some other tools used for next-gen sequencing
+analysis, variant tools is project based and provides a whole set of tools to
+manipulate and analyze genetic variants.")
+ (license license:gpl3+)))
+
(define-public r-chipseq
(package
(name "r-chipseq")