[PATCH] gnu: Add r-scent.

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  • Afkhami, Navid
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Afkhami, Navid
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Afkhami, Navid wrote on 3 Jun 16:19 +0200
(address . guix-patches@gnu.org)(name . Afkhami, Navid)(address . Navid.Afkhami@mdc-berlin.de)
c9ef68b873368599d6f260d353018cdeef953c3a.1717424395.git.Navid.Afkhami@mdc-berlin.de
* gnu/packages/bioinformatics.scm (r-scent): New variable.

Change-Id: Ie517c0619683590f630013982e831fad528c1dea
---
gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++
1 file changed, 37 insertions(+)

Toggle diff (52 lines)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index cecd94bbb7..cdda029809 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -1171,6 +1171,43 @@ (define-public r-scenic
;; GPLv3.
(license license:gpl3))))
+(define-public r-scent
+ (let ((commit "f01f18ac30f8a9bcf85b738c6c7815017e2c8ee5")
+ (revision "1"))
+ (package
+ (name "r-scent")
+ (version (git-version "1.0.0" revision commit))
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/immunogenomics/SCENT")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "18krksy8ac7yy8hghzaxscj91c61j195yg7j60zswdq97islvfzi"))))
+ (properties `((upstream-name . "SCENT")))
+ (build-system r-build-system)
+ (inputs (list bedtools))
+ (propagated-inputs (list r-boot
+ r-data-table
+ r-hmisc
+ r-lme4
+ r-mass
+ r-matrix
+ r-r-utils
+ r-stringr))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/immunogenomics/SCENT")
+ (synopsis
+ "Single-Cell enhancer target gene mapping for multimodal single-cell data")
+ (description
+ "This package contains functions for the SCENT algorithm.
+SCENT uses single-cell multimodal data and links ATAC-seq peaks
+to their target genes by modeling association between chromatin
+accessibility and gene expression across individual single cells.")
+ (license license:expat))))
+
(define-public r-saige
(let ((commit "c6717ba9c5a967bcf612e97566d845397b1b7167")
(revision "1"))

base-commit: 1615084a9a4115d48b75b3db048761e7534efc87
--
2.34.1
?
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