gnu: Add python-multivelo.
* gnu/packages/bioinformatics.scm (python-multivelo): New variable.
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@ -10540,6 +10540,65 @@ (define-public python-biothings-client
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API services.")
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API services.")
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(license license:bsd-3)))
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(license license:bsd-3)))
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(define-public python-multivelo
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(package
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(name "python-multivelo")
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(version "0.1.2")
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(source (origin
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(method url-fetch)
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(uri (pypi-uri "multivelo" version))
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(sha256
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(base32
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"1b4qyngwagh5sc2ygyfqyirg63myzh1g1glk03a1ykxfii32cjlp"))))
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(build-system python-build-system)
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(arguments
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(list
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#:tests? #f ;pypi source does not contain tests
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#:phases
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#~(modify-phases %standard-phases
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(replace 'build
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(lambda _
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;; ZIP does not support timestamps before 1980.
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(setenv "SOURCE_DATE_EPOCH" "315532800")
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(invoke "python" "-m" "build" "--wheel" "--no-isolation" ".")))
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(replace 'install
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(lambda _
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(for-each
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(lambda (wheel)
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(format #t wheel)
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(invoke "python" "-m" "pip" "install"
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wheel (string-append "--prefix=" #$output)))
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(find-files "dist" "\\.whl$"))))
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(add-before 'sanity-check 'set-env
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(lambda _
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;; numba RuntimeError: cannot cache function 'rdist'
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(setenv "NUMBA_CACHE_DIR" "/tmp"))))))
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(native-inputs (list python-pypa-build))
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(propagated-inputs
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(list python-anndata
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python-h5py
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python-ipywidgets
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python-joblib
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python-loompy
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python-matplotlib
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python-numba
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python-numpy
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python-pandas
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python-scanpy
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python-scikit-learn
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python-scipy
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python-seaborn
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python-tqdm
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python-umap-learn
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scvelo))
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(home-page "https://github.com/welch-lab/MultiVelo")
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(synopsis "Velocity inference from single-cell multi-omic data")
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(description "MultiVelo uses a probabilistic latent variable model to
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estimate the switch time and rate parameters of gene regulation, providing a
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quantitative summary of the temporal relationship between epigenomic and
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transcriptomic changes.")
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(license license:bsd-3)))
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(define-public python-mygene
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(define-public python-mygene
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(package
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(package
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(name "python-mygene")
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(name "python-mygene")
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