From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <51513@debbugs.gnu.org>
Cc: rekado@elephly.net,
"Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
Subject: [bug#51513] [PATCH 3/3] gnu: Add r-xina.
Date: Sat, 30 Oct 2021 17:55:06 +0200 [thread overview]
Message-ID: <20211030155506.28269-3-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de>
* gnu/packages/bioconductor.scm (r-xina): New variable.
---
gnu/packages/bioconductor.scm | 36 +++++++++++++++++++++++++++++++++++
1 file changed, 36 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index f82427f831..a232c3fe61 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4660,6 +4660,42 @@ (define-public r-vsn
and specific in detecting differential transcription.")
(license license:artistic2.0)))
+(define-public r-xina
+ (package
+ (name "r-xina")
+ (version "1.12.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "XINA" version))
+ (sha256
+ (base32 "14j1rn3p7i0rlqkbbg0a6pyhb97ifzvsbw6vfxw9pna7zv7rbhsp"))))
+ (properties `((upstream-name . "XINA")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-alluvial" ,r-alluvial)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-gridextra" ,r-gridextra)
+ ("r-igraph" ,r-igraph)
+ ("r-mclust" ,r-mclust)
+ ("r-plyr" ,r-plyr)
+ ("r-stringdb" ,r-stringdb)))
+ (native-inputs `(("r-knitr" ,r-knitr)))
+ (home-page "https://git.bioconductor.org/packages/XINA")
+ (synopsis "Identifying proteins that exhibit similar patterns")
+ (description
+ "The aim of @code{XINA} is to determine which proteins exhibit similar
+patterns within and across experimental conditions, since proteins with
+co-abundance patterns may have common molecular functions. @code{XINA} imports
+multiple datasets, tags dataset in silico, and combines the data for subsequent
+subgrouping into multiple clusters. The result is a single output depicting
+the variation across all conditions. @code{XINA}, not only extracts
+coabundance profiles within and across experiments, but also incorporates
+protein-protein interaction databases and integrative resources such as
+@dfn{Kyoto encyclopedia of genes and genomes} (KEGG) to infer interactors and
+molecular functions, respectively, and produces intuitive graphical outputs.")
+ (license license:gpl3)))
+
(define-public r-xvector
(package
(name "r-xvector")
--
2.33.0
next prev parent reply other threads:[~2021-10-30 15:56 UTC|newest]
Thread overview: 5+ messages / expand[flat|nested] mbox.gz Atom feed top
2021-10-30 15:52 [bug#51513] Add r-xina and it's dependencies: r-stringdb and r-alluvial MadalinIonel.Patrascu
2021-10-30 15:55 ` [bug#51513] [PATCH 1/3] gnu: Add r-alluvial Mădălin Ionel Patrașcu
2021-10-30 15:55 ` [bug#51513] [PATCH 2/3] gnu: Add r-stringdb Mădălin Ionel Patrașcu
2021-10-30 15:55 ` Mădălin Ionel Patrașcu [this message]
2021-11-27 9:35 ` bug#51513: [PATCH 1/3] gnu: Add r-alluvial Ricardo Wurmus
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