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| author | Ricardo Wurmus <rekado@elephly.net> | 2024-11-04 10:26:17 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2024-11-04 10:29:36 +0100 |
| commit | a019e11ed2e425131cba601db74b569cab5bab3d (patch) | |
| tree | d168c780f59baf6cadb7eaada4ca428e3afa9b3d | |
| parent | 69ac9b72ce3914c2d1c07f80a2e1db85c9035e5d (diff) | |
| download | guix-a019e11ed2e425131cba601db74b569cab5bab3d.tar.gz guix-a019e11ed2e425131cba601db74b569cab5bab3d.zip | |
gnu: Add python-hotspotsc.
* gnu/packages/bioinformatics.scm (python-hotspotsc): New variable.
Change-Id: Ib3550837659f95d5a43e77137005db8cc03e6c3f
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 52 |
1 files changed, 52 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index ea38a10277..10ecac18ae 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2421,6 +2421,58 @@ from single-cell RNA-sequencing.") to produce high quality figures that can be used in publications.") (license license:expat))) +(define-public python-hotspotsc + (package + (name "python-hotspotsc") + (version "1.1.1") + (source + (origin + (method url-fetch) + (uri (pypi-uri "hotspotsc" version)) + (sha256 + (base32 "1phbd49nb0ivfcgfi6yxd2masgd0v6133mki9vd5pkrhx0a7wb5d")))) + (build-system pyproject-build-system) + (arguments + (list + #:tests? #false ;there are none + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'use-poetry-core + (lambda _ + ;; Patch to use the core poetry API. + (substitute* "pyproject.toml" + (("poetry.masonry.api") + "poetry.core.masonry.api") + ;; Fix syntax error + (("sphinx>") "sphinx"))))))) + (propagated-inputs (list python-anndata + python-importlib-metadata + python-ipython + python-matplotlib + python-nbsphinx + python-numba + python-numpy + python-pandas + python-pynndescent + python-scanpy + python-scikit-learn + python-scipy + python-seaborn + python-statsmodels + python-tqdm)) + (native-inputs + (list python-poetry-core python-pytest python-sphinx)) + (home-page "https://github.com/yoseflab/hotspot") + (synopsis + "Identifying informative genes in a single-cell dataset") + (description + "Hotspot is a tool for identifying informative genes (and gene modules) +in a single-cell dataset. Importantly, \"informative\" is decided based on +how well a gene's variation agrees with some cell metric---some similarity +mapping between cells. Genes which are informative are those whose expression +varies in similar way among cells which are nearby in the given metric.") + (license license:expat))) + (define-public python-htsget (package (name "python-htsget") |