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[bug#63448] [PATCH 2/2] gnu: Add python-mgatk.
From: |
Mădălin Ionel Patrașcu |
Subject: |
[bug#63448] [PATCH 2/2] gnu: Add python-mgatk. |
Date: |
Thu, 11 May 2023 20:34:12 +0200 |
* gnu/packages/bioinformatics.scm (python-mgatk): New variable.
---
gnu/packages/bioinformatics.scm | 35 +++++++++++++++++++++++++++++++++
1 file changed, 35 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index afca5ab93b..92017b3a07 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -12628,6 +12628,41 @@ (define-public python-biothings-client
API services.")
(license license:bsd-3)))
+(define-public python-mgatk
+ (package
+ (name "python-mgatk")
+ (version "0.6.7")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "mgatk" version))
+ (sha256
+ (base32 "0bxxk3v8lmqcdnm97468p7p3kzb59i5bpgayx7kqzl2p8lfwzi9h"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list #:tests? #f)) ; There are no tests in the pypi archive.
+ (propagated-inputs
+ (list python-biopython
+ python-click
+ python-numpy
+ python-optparse-pretty
+ python-pandas
+ python-pysam
+ python-regex
+ python-ruamel.yaml
+ snakemake))
+ (native-inputs
+ (list python-pytest))
+ (home-page "https://github.com/caleblareau/mgatk";)
+ (synopsis "Mitochondrial genome analysis toolkit.")
+ (description "This package is a python-based command line interface for
+processing .bam files with mitochondrial reads and generating high-quality
+heteroplasmy estimation from sequencing data. The mgatk package places a
+special emphasis on mitochondrial genotypes generated from single-cell genomics
+data, primarily @acronym{mtscATAC-seq, mitochondrial single-cell
ATAC-sequence},
+but is generally applicable across other assays.")
+ (license license:expat)))
+
(define-public python-multivelo
(package
(name "python-multivelo")
--
2.39.2