From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <46937@debbugs.gnu.org>
Cc: rekado@elephly.net,
"Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
Subject: [bug#46937] [PATCH 3/3] gnu: Add r-circrnaprofiler.
Date: Fri, 5 Mar 2021 02:20:39 +0100 [thread overview]
Message-ID: <20210305012039.15219-3-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <20210305012039.15219-1-madalinionel.patrascu@mdc-berlin.de>
* gnu/packages/bioconductor.scm (r-circrnaprofiler): New variable.
---
gnu/packages/bioconductor.scm | 53 +++++++++++++++++++++++++++++++++++
1 file changed, 53 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 55a9b07509..2da2be6ae3 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -6810,6 +6810,59 @@ accessibility data.")
,@(alist-delete "r-monocle"
(package-propagated-inputs r-cicero)))))))
+(define-public r-circrnaprofiler
+ (package
+ (name "r-circrnaprofiler")
+ (version "1.4.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "circRNAprofiler" version))
+ (sha256
+ (base32
+ "1rwpl9a5p5242aiapik0vf4ywqh7m6phzl8z8qmzcy0imbx7mpbn"))))
+ (properties
+ `((upstream-name . "circRNAprofiler")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-annotationhub" ,r-annotationhub)
+ ("r-biostrings" ,r-biostrings)
+ ("r-bsgenome" ,r-bsgenome)
+ ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19)
+ ("r-deseq2" ,r-deseq2)
+ ("r-dplyr" ,r-dplyr)
+ ("r-edger" ,r-edger)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-gwascat" ,r-gwascat)
+ ("r-iranges" ,r-iranges)
+ ("r-magrittr" ,r-magrittr)
+ ("r-r-utils" ,r-r-utils)
+ ("r-readr" ,r-readr)
+ ("r-reshape2" ,r-reshape2)
+ ("r-rlang" ,r-rlang)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-seqinr" ,r-seqinr)
+ ("r-stringi" ,r-stringi)
+ ("r-stringr" ,r-stringr)
+ ("r-universalmotif" ,r-universalmotif)))
+ (native-inputs
+ `(("r-knitr" ,r-knitr)))
+ (home-page
+ "https://github.com/Aufiero/circRNAprofiler")
+ (synopsis
+ "Computational framework for the downstream analysis of circular RNA's")
+ (description
+ "@code{r-circrnaprofiler} is a computational framework for a comprehensive
+in silico analysis of @dfn{circular RNA} (circRNAs). This computational
+framework allows to combine and analyze circRNAs previously detected by
+multiple publicly available annotation-based circRNA detection tools. It
+covers different aspects of circRNAs analysis from differential expression
+analysis, evolutionary conservation, biogenesis to functional analysis.")
+ (license license:gpl3)))
+
(define-public r-cistopic
(let ((commit "29abd8df9afb60ff27ac3f0a590930debe926950")
(revision "0"))
--
2.30.1
next prev parent reply other threads:[~2021-03-05 1:22 UTC|newest]
Thread overview: 5+ messages / expand[flat|nested] mbox.gz Atom feed top
2021-03-05 1:18 [bug#46937] (no subject) Mădălin Ionel Patrașcu
2021-03-05 1:20 ` [bug#46937] [PATCH 1/3] gnu: Add r-rcppthread Mădălin Ionel Patrașcu
2021-03-05 1:20 ` [bug#46937] [PATCH 2/3] gnu: Add r-universalmotif Mădălin Ionel Patrașcu
2021-03-05 1:20 ` Mădălin Ionel Patrașcu [this message]
2021-03-05 15:21 ` bug#46937: [PATCH 1/3] gnu: Add r-rcppthread Ricardo Wurmus
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