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gnu: r-fourcseq: Move to (gnu packages bioconductor).

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* gnu/packages/cran.scm (r-fourcseq): Move from here...
* gnu/packages/bioconductor.scm (r-fourcseq): ...to here.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
This commit is contained in:
zimoun 2020-09-14 18:07:36 +02:00 committed by Ricardo Wurmus
parent 62881beb4d
commit f4d920b9f7
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2 changed files with 45 additions and 44 deletions
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45
gnu/packages/bioconductor.scm
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@ -4,6 +4,7 @@
;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2019 Simon Tournier <zimon.toutoune@gmail.com>
;;; Copyright © 2020 Peter Lo <peterloleungyau@gmail.com>
;;; Copyright © 2020 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
;;;
;;; This file is part of GNU Guix.
;;;
@ -8242,3 +8243,47 @@ (define-public r-fhtest
@end itemize
")
(license license:gpl2+)))
(define-public r-fourcseq
(package
(name "r-fourcseq")
(version "1.22.1")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "FourCSeq" version))
(sha256
(base32 "14q1ijnqnbd9xs60sfvyqjfiypjrvhacpwp2v85yfhcxw870cx5b"))))
(properties `((upstream-name . "FourCSeq")))
(build-system r-build-system)
(propagated-inputs
`(("r-biobase" ,r-biobase)
("r-biostrings" ,r-biostrings)
("r-deseq2" ,r-deseq2)
("r-fda" ,r-fda)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicranges" ,r-genomicranges)
("r-ggbio" ,r-ggbio)
("r-ggplot2" ,r-ggplot2)
("r-gtools" ,r-gtools)
("r-lsd" ,r-lsd)
("r-matrix" ,r-matrix)
("r-reshape2" ,r-reshape2)
("r-rsamtools" ,r-rsamtools)
("r-rtracklayer" ,r-rtracklayer)
("r-summarizedexperiment" ,r-summarizedexperiment)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page
"https://bioconductor.org/packages/release/bioc/html/FourCSeq.html")
(synopsis "Analysis of multiplexed 4C sequencing data")
(description
"This package is an R package dedicated to the analysis of (multiplexed)
4C sequencing data. @code{r-fourcseq} provides a pipeline to detect specific
interactions between DNA elements and identify differential interactions
between conditions. The statistical analysis in R starts with individual bam
files for each sample as inputs. To obtain these files, the package contains
a Python script to demultiplex libraries and trim off primer sequences. With
a standard alignment software the required bam files can be then be
generated.")
(license license:gpl3+)))

44
gnu/packages/cran.scm
View file

@ -22575,50 +22575,6 @@ (define-public r-lsd
;; Either version
(license (list license:gpl2 license:gpl3))))
(define-public r-fourcseq
(package
(name "r-fourcseq")
(version "1.22.1")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "FourCSeq" version))
(sha256
(base32 "14q1ijnqnbd9xs60sfvyqjfiypjrvhacpwp2v85yfhcxw870cx5b"))))
(properties `((upstream-name . "FourCSeq")))
(build-system r-build-system)
(propagated-inputs
`(("r-biobase" ,r-biobase)
("r-biostrings" ,r-biostrings)
("r-deseq2" ,r-deseq2)
("r-fda" ,r-fda)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicranges" ,r-genomicranges)
("r-ggbio" ,r-ggbio)
("r-ggplot2" ,r-ggplot2)
("r-gtools" ,r-gtools)
("r-lsd" ,r-lsd)
("r-matrix" ,r-matrix)
("r-reshape2" ,r-reshape2)
("r-rsamtools" ,r-rsamtools)
("r-rtracklayer" ,r-rtracklayer)
("r-summarizedexperiment" ,r-summarizedexperiment)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page
"https://bioconductor.org/packages/release/bioc/html/FourCSeq.html")
(synopsis "Analysis of multiplexed 4C sequencing data")
(description
"This package is an R package dedicated to the analysis of (multiplexed)
4C sequencing data. @code{r-fourcseq} provides a pipeline to detect specific
interactions between DNA elements and identify differential interactions
between conditions. The statistical analysis in R starts with individual bam
files for each sample as inputs. To obtain these files, the package contains
a Python script to demultiplex libraries and trim off primer sequences. With
a standard alignment software the required bam files can be then be
generated.")
(license license:gpl3+)))
(define-public r-phylogram
(package
(name "r-phylogram")