From aa2aaa65ced146fa62641dae6370fd3dd2548492 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= Date: Sat, 30 Oct 2021 17:55:06 +0200 Subject: [PATCH] gnu: Add r-xina. * gnu/packages/bioconductor.scm (r-xina): New variable. Signed-off-by: Ricardo Wurmus --- gnu/packages/bioconductor.scm | 36 +++++++++++++++++++++++++++++++++++ 1 file changed, 36 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 527e549bc6..80c264dfcd 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4695,6 +4695,42 @@ (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")