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| author | Ricardo Wurmus <rekado@elephly.net> | 2024-12-02 10:28:04 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2024-12-02 10:28:59 +0100 |
| commit | 207c69e40d3dca947137dbfcd0564e610b17832d (patch) | |
| tree | b957a7b6e8d00de1a327ab02d6a59baec0abb209 | |
| parent | 1f047996b8d5f1e8f40e611922fa4ca1c20b0104 (diff) | |
| download | guix-207c69e40d3dca947137dbfcd0564e610b17832d.tar.gz guix-207c69e40d3dca947137dbfcd0564e610b17832d.zip | |
gnu: Add macs-3.
* gnu/packages/bioinformatics.scm (macs-3): New variable.
Change-Id: I4bc417e90a1e9d6d28226ea4f66ddc035826c2c4
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 45 |
1 files changed, 45 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 421bc9bf0d..82d4e84b6c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9193,6 +9193,51 @@ resolution of binding sites through combining the information of both sequencing tag position and orientation.") (license license:bsd-3))) +(define-public macs-3 + (package + (name "macs") + (version "3.0.2") + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/macs3-project/MACS") + (commit (string-append "v" version)) + (recursive? #true))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0x5iz6iq694z3m9zx7zdw0js2l2l40lf1as9k3jy0q4mvz02a3aw")))) + (properties + '((updater-extra-inputs . ("zlib")))) + (build-system pyproject-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + ;; FIXME: our version of numpy is a little too old. + (add-after 'unpack 'relax-requirements + (lambda _ + (substitute* '("pyproject.toml" "requirements.txt" "setup.py") + (("numpy.*=1.25") "numpy>=1.23"))))))) + (propagated-inputs + (list python-cykhash + python-hmmlearn + python-numpy + python-scikit-learn + python-scipy)) + (native-inputs + (list python-cython-3 python-pytest python-setuptools zlib)) + (home-page "https://github.com/macs3-project/MACS") + (synopsis "Model based analysis for ChIP-Seq data") + (description + "MACS is an implementation of a ChIP-Seq analysis algorithm for +identifying transcript factor binding sites named Model-based Analysis of +ChIP-Seq (MACS). MACS captures the influence of genome complexity to evaluate +the significance of enriched ChIP regions and it improves the spatial +resolution of binding sites through combining the information of both +sequencing tag position and orientation.") + (license license:bsd-3))) + (define-public maffilter (package (name "maffilter") |