* [bug#65364] [PATCH] gnu: Add python-scDamAndTools.
@ 2023-08-18 14:01 Navid Afkhami
2023-08-28 7:51 ` bug#65364: " Ricardo Wurmus
0 siblings, 1 reply; 2+ messages in thread
From: Navid Afkhami @ 2023-08-18 14:01 UTC (permalink / raw)
To: 65364; +Cc: Navid Afkhami
* gnu/packages/bioinformatics.scm (python-scDamAndTools): New variable.
---
gnu/packages/bioinformatics.scm | 34 +++++++++++++++++++++++++++++++++
1 file changed, 34 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 51640b710f..03b1e81634 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -2154,6 +2154,40 @@ (define-public python-pybedtools
;; 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 unctions for processing raw scDam&T-seq data.
+A method to simultaneously measure protein-DNA interactions and transcription
+from single cells (Rooijers et al., 2019). scDam&T-seq 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")
base-commit: 1b2d43fe016848ea2ec16ff18cbc14340944fc4e
--
2.34.1
^ permalink raw reply related [flat|nested] 2+ messages in thread
* bug#65364: [PATCH] gnu: Add python-scDamAndTools.
2023-08-18 14:01 [bug#65364] [PATCH] gnu: Add python-scDamAndTools Navid Afkhami
@ 2023-08-28 7:51 ` Ricardo Wurmus
0 siblings, 0 replies; 2+ messages in thread
From: Ricardo Wurmus @ 2023-08-28 7:51 UTC (permalink / raw)
To: 65364-done
Thanks for the patch. I renamed it to all lowercase and changed the
description a little bit.
Pushed!
--
Ricardo
^ permalink raw reply [flat|nested] 2+ messages in thread
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2023-08-18 14:01 [bug#65364] [PATCH] gnu: Add python-scDamAndTools Navid Afkhami
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