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branch master updated: gnu: Add python-snaptools.
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guix-commits |
Subject: |
branch master updated: gnu: Add python-snaptools. |
Date: |
Fri, 05 Jan 2024 11:57:50 -0500 |
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 cb15b360aa gnu: Add python-snaptools.
cb15b360aa is described below
commit cb15b360aabb9a572dd8f4a697e50cba4481902e
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Fri Jan 5 17:55:17 2024 +0100
gnu: Add python-snaptools.
* gnu/packages/bioinformatics.scm (python-snaptools): New variable.
Change-Id: I4f4b32cbbb64472e65d2d88184173b6e1a75e8d2
---
gnu/packages/bioinformatics.scm | 34 ++++++++++++++++++++++++++++++++++
1 file changed, 34 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 4bed2e4fe8..a363298386 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -2366,6 +2366,40 @@ sequencing data and the end result are tables of
UMI-unique DamID and CEL-Seq
counts.")
(license license:expat)))
+(define-public python-snaptools
+ (package
+ (name "python-snaptools")
+ (version "1.4.8")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "snaptools" version))
+ (sha256
+ (base32
+ "1s5373g5jjbshh3q39zy7dlxr7nda6ksxq9d1gw46h82c4fsmfbn"))))
+ (build-system pyproject-build-system)
+ (propagated-inputs
+ (list python-future
+ python-h5py
+ python-louvain
+ python-numpy
+ python-pybedtools
+ python-pysam))
+ (home-page "https://github.com/r3fang/SnapTools")
+ (synopsis "Tools for processing snap files" )
+ (description
+ "@code{SnapTools} can operate on snap files the following types of
+operations:
+
+@itemize
+@item index the reference genome before alignment;
+@item align reads to the corresponding reference genome;
+@item pre-process by convert pair-end reads into fragments, checking the
+ mapping quality score, alingment and filtration;
+@item create the cell-by-bin matrix.
+@end itemize")
+ (license license:asl2.0)))
+
(define-public python-bioframe
(package
(name "python-bioframe")
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