diff options
Diffstat (limited to 'gnu/packages')
-rw-r--r-- | gnu/packages/bioinformatics.scm | 59 |
1 files changed, 59 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index da57868284..d431e467ed 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10540,6 +10540,65 @@ single-cell RNA-seq data.") API services.") (license license:bsd-3))) +(define-public python-multivelo + (package + (name "python-multivelo") + (version "0.1.2") + (source (origin + (method url-fetch) + (uri (pypi-uri "multivelo" version)) + (sha256 + (base32 + "1b4qyngwagh5sc2ygyfqyirg63myzh1g1glk03a1ykxfii32cjlp")))) + (build-system python-build-system) + (arguments + (list + #:tests? #f ;pypi source does not contain tests + #:phases + #~(modify-phases %standard-phases + (replace 'build + (lambda _ + ;; ZIP does not support timestamps before 1980. + (setenv "SOURCE_DATE_EPOCH" "315532800") + (invoke "python" "-m" "build" "--wheel" "--no-isolation" "."))) + (replace 'install + (lambda _ + (for-each + (lambda (wheel) + (format #t wheel) + (invoke "python" "-m" "pip" "install" + wheel (string-append "--prefix=" #$output))) + (find-files "dist" "\\.whl$")))) + (add-before 'sanity-check 'set-env + (lambda _ + ;; numba RuntimeError: cannot cache function 'rdist' + (setenv "NUMBA_CACHE_DIR" "/tmp")))))) + (native-inputs (list python-pypa-build)) + (propagated-inputs + (list python-anndata + python-h5py + python-ipywidgets + python-joblib + python-loompy + python-matplotlib + python-numba + python-numpy + python-pandas + python-scanpy + python-scikit-learn + python-scipy + python-seaborn + python-tqdm + python-umap-learn + scvelo)) + (home-page "https://github.com/welch-lab/MultiVelo") + (synopsis "Velocity inference from single-cell multi-omic data") + (description "MultiVelo uses a probabilistic latent variable model to +estimate the switch time and rate parameters of gene regulation, providing a +quantitative summary of the temporal relationship between epigenomic and +transcriptomic changes.") + (license license:bsd-3))) + (define-public python-mygene (package (name "python-mygene") |