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branch master updated: gnu: Add python-scdamandtools.
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guix-commits |
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branch master updated: gnu: Add python-scdamandtools. |
Date: |
Mon, 28 Aug 2023 03:51:07 -0400 |
This is an automated email from the git hooks/post-receive script.
rekado pushed a commit to branch master
in repository guix.
The following commit(s) were added to refs/heads/master by this push:
new dd14ee0676 gnu: Add python-scdamandtools.
dd14ee0676 is described below
commit dd14ee0676cdd2ef9c5c0e8bfff66391c1975bd8
Author: Navid Afkhami <navid.afkhami@mdc-berlin.de>
AuthorDate: Fri Aug 18 14:01:06 2023 +0000
gnu: Add python-scdamandtools.
* gnu/packages/bioinformatics.scm (python-scdamandtools): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---
gnu/packages/bioinformatics.scm | 35 +++++++++++++++++++++++++++++++++++
1 file changed, 35 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 3e8fd887ee..2669942438 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -2154,6 +2154,41 @@ Python.")
;; licensed lgpl2.1+
(license (list license:expat license:lgpl2.1+))))
+(define-public python-scdamandtools
+ (package
+ (name "python-scdamandtools")
+ (version "1.0")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/KindLab/scDamAndTools")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1mblw6cn5jqik6ky8cv7ry99z6jm1i4r71pzdfl398vrwbda65gd"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list #:tests? #f)) ;there are none
+ (propagated-inputs (list python-h5py
+ python-numpy
+ python-sortedcontainers
+ python-pandas
+ python-pysam
+ python-tqdm))
+ (native-inputs (list python-cython python-pytest))
+ (home-page "https://github.com/KindLab/scDamAndTools")
+ (synopsis "Functions for processing raw scDam&T-seq data")
+ (description
+ "This is a set of functions for processing raw scDam&T-seq data.
+scDam&T-seq is a method to simultaneously measure protein-DNA interactions and
+transcription from single cells (Rooijers et al., 2019). It combines a
+DamID-based method to measure protein-DNA interactions and an adaptation of
+CEL-Seq to measure transcription. The starting point of the workflow is raw
+sequencing data and the end result are tables of UMI-unique DamID and CEL-Seq
+counts.")
+ (license license:expat)))
+
(define-public python-bioframe
(package
(name "python-bioframe")
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