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authorRicardo Wurmus <rekado@elephly.net>2019-03-13 22:48:10 +0100
committerRicardo Wurmus <rekado@elephly.net>2019-03-13 22:48:53 +0100
commitfd4c7a098a508c1de7a8513c0f3d88d5a0df12e7 (patch)
tree636624ba96d379a00bb5c7f6b4c737d88c0990f1 /gnu
parent55a0a3c853dc9177afeb9d438f3e4bdc1a1379e7 (diff)
downloadguix-fd4c7a098a508c1de7a8513c0f3d88d5a0df12e7.tar
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gnu: Add python-velocyto.
* gnu/packages/bioinformatics.scm (python-velocyto): New variable.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm31
1 files changed, 31 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index da0edcdf40..9b0a4314b9 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -14209,3 +14209,34 @@ short read sequences, removes errors then produces high quality unique
contigs. It then uses paired read information, if available, to retrieve the
repeated areas between contigs.")
(license license:gpl2+)))
+
+(define-public python-velocyto
+ (package
+ (name "python-velocyto")
+ (version "0.17.17")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "velocyto" version))
+ (sha256
+ (base32
+ "0fgygyzqgrq32dv6a00biq1p1cwi6kbl5iqblxq1kklj6b2mzmhs"))))
+ (build-system python-build-system)
+ (propagated-inputs
+ `(("python-click" ,python-click)
+ ("python-cython" ,python-cython)
+ ("python-h5py" ,python-h5py)
+ ("python-loompy" ,python-loompy)
+ ("python-matplotlib" ,python-matplotlib)
+ ("python-numba" ,python-numba)
+ ("python-numpy" ,python-numpy)
+ ("python-pandas" ,python-pandas)
+ ("python-pysam" ,python-pysam)
+ ("python-scikit-learn" ,python-scikit-learn)
+ ("python-scipy" ,python-scipy)))
+ (home-page "https://github.com/velocyto-team/velocyto.py")
+ (synopsis "RNA velocity analysis for single cell RNA-seq data")
+ (description
+ "Velocyto is a library for the analysis of RNA velocity. Velocyto
+includes a command line tool and an analysis pipeline.")
+ (license license:bsd-2)))