From: zimoun <zimon.toutoune@gmail.com>
To: 53349@debbugs.gnu.org
Cc: zimoun <zimon.toutoune@gmail.com>
Subject: [bug#53349] [PATCH 8/9] gnu: Add r-icellnet.
Date: Tue, 18 Jan 2022 18:54:17 +0100 [thread overview]
Message-ID: <20220118175418.1559782-8-zimon.toutoune@gmail.com> (raw)
In-Reply-To: <20220118175418.1559782-1-zimon.toutoune@gmail.com>
* gnu/packages/bioinformatics.scm (r-icellnet): New variable.
---
gnu/packages/bioinformatics.scm | 46 ++++++++++++++++++++++++++++++++-
1 file changed, 45 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 6caeec80f7..b2bd7fbbc0 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -21,7 +21,7 @@
;;; Copyright © 2020 Bonface Munyoki Kilyungi <bonfacemunyoki@gmail.com>
;;; Copyright © 2021 Tim Howes <timhowes@lavabit.com>
;;; Copyright © 2021 Hong Li <hli@mdc-berlin.de>
-;;; Copyright © 2021 Simon Tournier <zimon.toutoune@gmail.com>
+;;; Copyright © 2021, 2022 Simon Tournier <zimon.toutoune@gmail.com>
;;; Copyright © 2021 Felix Gruber <felgru@posteo.net>
;;;
;;; This file is part of GNU Guix.
@@ -7771,6 +7771,50 @@ (define-public r-archr
"This package is designed to streamline scATAC analyses in R.")
(license license:gpl2+))))
+(define-public r-icellnet
+ ;; v1.0 tagged in 2020, last commit contains many fixes.
+ ;; DESCRIPTION says Version: 0.0.0.9000.
+ (let ((commit "b9c05488fb8b5ea69bd560018966eaf4e25f82a")
+ (revision "0"))
+ (package
+ (name "r-icellnet")
+ (version (git-version "1.0" revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/soumelis-lab/ICELLNET")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "0cld7d6xqnvd0zpcpg3sx73an6vdc9divzywgnn6zxnqcd987cnw"))))
+ (build-system r-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'enter-dir
+ (lambda _ (chdir "icellnet"))))))
+ (propagated-inputs
+ (list r-annotationdbi
+ r-data-table
+ r-dplyr
+ r-ggplot2
+ r-hgu133plus2-db
+ r-jetset
+ r-psych
+ r-reshape2
+ r-rlist))
+ (home-page "https://github.com/soumelis-lab/ICELLNET")
+ (synopsis "Transcriptomic-based framework to dissect cell communication")
+ (description "This packages provides a a transcriptomic-based framework
+to dissect cell communication in a global manner. It integrates an original
+expert-curated database of ligand-receptor interactions taking into account
+multiple subunits expression. Based on transcriptomic profiles (gene
+expression), this package allows to compute communication scores between cells
+and provides several visualization modes that can be helpful to dig into
+cell-cell interaction mechanism and extend biological knowledge.")
+ (license license:gpl3))))
+
(define-public r-scde
(package
(name "r-scde")
--
2.34.0
next prev parent reply other threads:[~2022-01-18 18:06 UTC|newest]
Thread overview: 12+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-01-18 17:51 [bug#53349] [PATCH 0/9] Add 2 bioinformatics R packages zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 1/9] gnu: r-org-dr-eg-db: Update to 3.14.0 zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 2/9] gnu: Add r-jetset zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 3/9] gnu: Add r-hgu133plus2-db zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 4/9] gnu: Add r-chorddiag zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 5/9] gnu: Add r-scico zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 6/9] gnu: Add r-add2ggplot zimoun
2022-01-18 17:54 ` [bug#53349] [PATCH 7/9] gnu: Add r-rlist zimoun
2022-01-18 17:54 ` zimoun [this message]
2022-01-18 17:54 ` [bug#53349] [PATCH 9/9] gnu: Add r-scseqcomm zimoun
2022-01-21 13:58 ` bug#53349: [PATCH 0/9] Add 2 bioinformatics R packages Ricardo Wurmus
2022-01-24 14:08 ` [bug#53349] " zimoun
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