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04/04: gnu: Add r-abseqr.
From: |
guix-commits |
Subject: |
04/04: gnu: Add r-abseqr. |
Date: |
Fri, 29 Mar 2019 01:38:14 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 59d331f16a9bdc8c2cbc42534ca0871907c21319
Author: Ricardo Wurmus <address@hidden>
Date: Fri Mar 29 06:35:57 2019 +0100
gnu: Add r-abseqr.
* gnu/packages/bioconductor.scm (r-abseqr): New variable.
---
gnu/packages/bioconductor.scm | 47 +++++++++++++++++++++++++++++++++++++++++++
1 file changed, 47 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 7facbc1..2bb0e85 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -29,6 +29,7 @@
#:use-module (gnu packages compression)
#:use-module (gnu packages gcc)
#:use-module (gnu packages graph)
+ #:use-module (gnu packages haskell)
#:use-module (gnu packages maths)
#:use-module (gnu packages pkg-config)
#:use-module (gnu packages statistics)
@@ -3112,3 +3113,49 @@ Affymetrix arrays.")
"This package provides a software suite for the automated analysis of
Affymetrix arrays.")
(license license:gpl3)))
+
+(define-public r-abseqr
+ (package
+ (name "r-abseqr")
+ (version "1.0.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "abseqR" version))
+ (sha256
+ (base32
+ "0w0ngxnilcrxlixsz7ls3zm99gyabxwn7w1r3r45n96d4aj075ry"))))
+ (properties `((upstream-name . "abseqR")))
+ (build-system r-build-system)
+ (inputs
+ `(("pandoc" ,ghc-pandoc)))
+ (propagated-inputs
+ `(("r-biocparallel" ,r-biocparallel)
+ ("r-biocstyle" ,r-biocstyle)
+ ("r-circlize" ,r-circlize)
+ ("r-flexdashboard" ,r-flexdashboard)
+ ("r-ggcorrplot" ,r-ggcorrplot)
+ ("r-ggdendro" ,r-ggdendro)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-gridextra" ,r-gridextra)
+ ("r-knitr" ,r-knitr)
+ ("r-plotly" ,r-plotly)
+ ("r-plyr" ,r-plyr)
+ ("r-png" ,r-png)
+ ("r-rcolorbrewer" ,r-rcolorbrewer)
+ ("r-reshape2" ,r-reshape2)
+ ("r-rmarkdown" ,r-rmarkdown)
+ ("r-stringr" ,r-stringr)
+ ("r-vegan" ,r-vegan)
+ ("r-venndiagram" ,r-venndiagram)))
+ (home-page "https://github.com/malhamdoosh/abseqR")
+ (synopsis "Reporting and data analysis for Rep-Seq datasets of antibody
libraries")
+ (description
+ "AbSeq is a comprehensive bioinformatic pipeline for the analysis of
+sequencing datasets generated from antibody libraries and abseqR is one of its
+packages. AbseqR empowers the users of abseqPy with plotting and reporting
+capabilities and allows them to generate interactive HTML reports for the
+convenience of viewing and sharing with other researchers. Additionally,
+abseqR extends abseqPy to compare multiple repertoire analyses and perform
+further downstream analysis on its output.")
+ (license license:gpl3)))