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-rw-r--r--gnu/packages/bioinformatics.scm42
1 files changed, 25 insertions, 17 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 828e965989..18b787b704 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8529,43 +8529,51 @@ paired-end data.")
(define-public r-rcas
(package
(name "r-rcas")
- (version "1.3.4")
+ (version "1.6.0")
(source (origin
(method url-fetch)
- (uri (string-append "https://github.com/BIMSBbioinfo/RCAS/archive/v"
- version ".tar.gz"))
- (file-name (string-append name "-" version ".tar.gz"))
+ (uri (bioconductor-uri "RCAS" version))
(sha256
(base32
- "1qgc7vi6fpzl440yg7jhiycg5q336kd4pxqzx10yx2zcq3bq3msg"))))
+ "0vmn7a0rm2ban0kaxrf5danhss2r4hfhnwh5889fjcgqy300fdd5"))))
(build-system r-build-system)
(native-inputs
- `(("r-knitr" ,r-knitr)
- ("r-testthat" ,r-testthat)
+ `(("r-testthat" ,r-testthat)
;; During vignette building knitr checks that "pandoc-citeproc"
;; is in the PATH.
("ghc-pandoc-citeproc" ,ghc-pandoc-citeproc-with-pandoc-1)))
(propagated-inputs
- `(("r-data-table" ,r-data-table)
+ `(("r-biocgenerics" ,r-biocgenerics)
("r-biomart" ,r-biomart)
- ("r-org-hs-eg-db" ,r-org-hs-eg-db)
- ("r-org-ce-eg-db" ,r-org-ce-eg-db)
- ("r-org-dm-eg-db" ,r-org-dm-eg-db)
- ("r-org-mm-eg-db" ,r-org-mm-eg-db)
+ ("r-biostrings" ,r-biostrings)
("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19)
("r-bsgenome-mmusculus-ucsc-mm9" ,r-bsgenome-mmusculus-ucsc-mm9)
("r-bsgenome-celegans-ucsc-ce10" ,r-bsgenome-celegans-ucsc-ce10)
("r-bsgenome-dmelanogaster-ucsc-dm3" ,r-bsgenome-dmelanogaster-ucsc-dm3)
- ("r-topgo" ,r-topgo)
+ ("r-cowplot" ,r-cowplot)
+ ("r-data-table" ,r-data-table)
+ ("r-dbi" ,r-dbi)
("r-dt" ,r-dt)
+ ("r-genomation" ,r-genomation)
+ ("r-genomicfeatures" ,r-genomicfeatures)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-ggseqlogo" ,r-ggseqlogo)
+ ("r-knitr" ,r-knitr)
+ ("r-motifrg" ,r-motifrg)
+ ("r-org-hs-eg-db" ,r-org-hs-eg-db)
+ ("r-org-ce-eg-db" ,r-org-ce-eg-db)
+ ("r-org-dm-eg-db" ,r-org-dm-eg-db)
+ ("r-org-mm-eg-db" ,r-org-mm-eg-db)
("r-pbapply" ,r-pbapply)
+ ("r-pheatmap" ,r-pheatmap)
("r-plotly" ,r-plotly)
("r-plotrix" ,r-plotrix)
- ("r-motifrg" ,r-motifrg)
- ("r-genomation" ,r-genomation)
- ("r-genomicfeatures" ,r-genomicfeatures)
+ ("r-proxy" ,r-proxy)
+ ("r-rsqlite" ,r-rsqlite)
("r-rtracklayer" ,r-rtracklayer)
- ("r-rmarkdown" ,r-rmarkdown)))
+ ("r-rmarkdown" ,r-rmarkdown)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-topgo" ,r-topgo)))
(synopsis "RNA-centric annotation system")
(description
"RCAS aims to be a standalone RNA-centric annotation system that provides