M gnu/packages/bioinformatics.scm => gnu/packages/bioinformatics.scm +42 -0
@@ 3406,6 3406,48 @@ annotation, provides Python genomic feature search and sequence retrieval from
the managed genomes, STAR indexing and mapping and more.")
(license license:gpl3+))))
+(define-public python-pysnptools
+ (package
+ (name "python-pysnptools")
+ (version "0.5.14")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "pysnptools" version))
+ (sha256
+ (base32
+ "1babnyky5fk93as1ybdvpz9x3x5099gkgscxflngzfswin23mspk"))))
+ (build-system pyproject-build-system)
+ ;; Tests require test data from python-bed-reader, which fetches data with
+ ;; python-pooch.
+ (arguments (list #:tests? #f))
+ (propagated-inputs
+ (list python-bed-reader
+ python-cloudpickle
+ python-h5py
+ python-more-itertools
+ python-numpy
+ python-pandas
+ python-psutil
+ python-scipy))
+ (native-inputs
+ (list python-pytest
+ python-pytest-cov
+ python-pytest-datadir
+ python-pytest-doctestplus
+ python-setuptools
+ python-sphinx
+ python-sphinx-rtd-theme
+ python-wheel))
+ (home-page "http://microsoftgenomics.github.io/PySnpTools/")
+ (synopsis "Library for reading and manipulating genetic data")
+ (description
+ "PySnpTools is a library for reading and manipulating genetic data. It
+can, for example, efficiently read whole PLINK *.bed/bim/fam files or parts of
+those files. It can also efficiently manipulate ranges of integers using set
+operators such as union, intersection, and difference.")
+ (license license:asl2.0)))
+
(define-public python-ega-download-client
(package
(name "python-ega-download-client")
M gnu/packages/python-xyz.scm => gnu/packages/python-xyz.scm +0 -42
@@ 10521,48 10521,6 @@ snippets with input parameters (e.g., the size of an array) and plotting
the results.")
(license license:gpl3+)))
-(define-public python-pysnptools
- (package
- (name "python-pysnptools")
- (version "0.5.14")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "pysnptools" version))
- (sha256
- (base32
- "1babnyky5fk93as1ybdvpz9x3x5099gkgscxflngzfswin23mspk"))))
- (build-system pyproject-build-system)
- ;; Tests require test data from python-bed-reader, which fetches data with
- ;; python-pooch.
- (arguments (list #:tests? #f))
- (propagated-inputs
- (list python-bed-reader
- python-cloudpickle
- python-h5py
- python-more-itertools
- python-numpy
- python-pandas
- python-psutil
- python-scipy))
- (native-inputs
- (list python-pytest
- python-pytest-cov
- python-pytest-datadir
- python-pytest-doctestplus
- python-setuptools
- python-sphinx
- python-sphinx-rtd-theme
- python-wheel))
- (home-page "http://microsoftgenomics.github.io/PySnpTools/")
- (synopsis "Library for reading and manipulating genetic data")
- (description
- "PySnpTools is a library for reading and manipulating genetic data. It
-can, for example, efficiently read whole PLINK *.bed/bim/fam files or parts of
-those files. It can also efficiently manipulate ranges of integers using set
-operators such as union, intersection, and difference.")
- (license license:asl2.0)))
-
(define-public python-pykdtree
(package
(name "python-pykdtree")