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authorRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2018-02-14 14:28:00 +0100
committerRicardo Wurmus <rekado@elephly.net>2018-02-15 17:19:00 +0100
commit152d30c34690c00cc96053a9ae6196b26e93ba84 (patch)
tree7900a478a15426a0c5a98fb43fff44cf60a0d7e7 /gnu/packages/bioinformatics.scm
parent3082de04c2b193bf2db2312c9ea28c18bb28bdf4 (diff)
downloadpatches-152d30c34690c00cc96053a9ae6196b26e93ba84.tar
patches-152d30c34690c00cc96053a9ae6196b26e93ba84.tar.gz
gnu: Add python-loompy.
* gnu/packages/bioinformatics.scm (python-loompy): New variable.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
-rw-r--r--gnu/packages/bioinformatics.scm28
1 files changed, 28 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 0206eb35b5..f790737f5e 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -11857,3 +11857,31 @@ use of lightweight alignments (accurate but fast-to-compute proxies for
traditional read alignments) and massively-parallel stochastic collapsed
variational inference.")
(license license:gpl3+)))
+
+(define-public python-loompy
+ (package
+ (name "python-loompy")
+ (version "2.0.2")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "loompy" version))
+ (sha256
+ (base32
+ "1drgv8j1hxqzzpnfg272x9djb6j8qr798w1pc2x8ikmfgyd9gh51"))))
+ (build-system python-build-system)
+ ;; There are no tests
+ (arguments '(#:tests? #f))
+ (propagated-inputs
+ `(("python-h5py" ,python-h5py)
+ ("python-numpy" ,python-numpy)
+ ("python-scipy" ,python-scipy)
+ ("python-typing" ,python-typing)))
+ (home-page "https://github.com/linnarsson-lab/loompy")
+ (synopsis "Work with .loom files for single-cell RNA-seq data")
+ (description "The loom file format is an efficient format for very large
+omics datasets, consisting of a main matrix, optional additional layers, a
+variable number of row and column annotations. Loom also supports sparse
+graphs. This library makes it easy to work with @file{.loom} files for
+single-cell RNA-seq data.")
+ (license license:bsd-3)))