@@ -946,6 +946,52 @@ (define (cythonized? c/c++-file)
;; licensed lgpl2.1+
(license (list license:expat license:lgpl2.1+))))
+(define-public python-bioframe
+ (package
+ (name "python-bioframe")
+ (version "0.3.3")
+ (source
+ (origin
+ (method git-fetch)
+ ;; pypi version does not contain tests and requirements.txt
+ (uri (git-reference
+ (url "https://github.com/open2c/bioframe")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "14lvb18d4npapyi6j2zqh9q94l658dzmka5riiizw1h0zb0kp9xb"))))
+ (build-system python-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (setenv "MPLCONFIGDIR" "/tmp")
+ (when tests?
+ (invoke "pytest" "-v")))))))
+ (native-inputs
+ (list python-biopython
+ python-pysam
+ python-pytest
+ python-wheel))
+ (propagated-inputs
+ (list python-matplotlib
+ python-numpy
+ python-pandas
+ python-requests))
+ (home-page "https://github.com/open2c/bioframe")
+ (synopsis "Pandas utilities for tab-delimited and other genomic files")
+ (description
+ "This package is a library to enable flexible and scalable operations on
+genomic interval dataframes in @code{python}. @code{python-bioframe} enables
+access to a rich set of dataframe operations. Working in @code{python} enables
+rapid visualization (e.g. @code{matplotlib}, @code{seaborn}) and iteration of
+genomic analyses. The philosophy underlying @code{python-bioframe} is to enable
+flexible operations. Instead of creating a function for every possible use-case,
+we encourage users to compose functions to achieve their goals.")
+ (license license:expat)))
+
(define-public python-biom-format
(package
(name "python-biom-format")