diff options
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 53 |
1 files changed, 53 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 5a67f6dbbd..3f02ec527a 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1786,6 +1786,59 @@ naming and share the same rich and consistent \"Vector API\" as much as possible.") (license license:artistic2.0))) +(define-public r-isoformswitchanalyzer + (package + (name "r-isoformswitchanalyzer") + (version "1.16.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "IsoformSwitchAnalyzeR" version)) + (sha256 + (base32 "14bqf39gw5ab5r9sr3afkig1jbzdvds1bmcvc6bpb45kschx7fwf")))) + (properties `((upstream-name . "IsoformSwitchAnalyzeR"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-biocgenerics" ,r-biocgenerics) + ("r-biostrings" ,r-biostrings) + ("r-bsgenome" ,r-bsgenome) + ("r-dbi" ,r-dbi) + ("r-dexseq" ,r-dexseq) + ("r-dplyr" ,r-dplyr) + ("r-drimseq" ,r-drimseq) + ("r-edger" ,r-edger) + ("r-futile-logger" ,r-futile-logger) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicranges" ,r-genomicranges) + ("r-ggplot2" ,r-ggplot2) + ("r-gridextra" ,r-gridextra) + ("r-iranges" ,r-iranges) + ("r-limma" ,r-limma) + ("r-magrittr" ,r-magrittr) + ("r-plyr" ,r-plyr) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-rcurl" ,r-rcurl) + ("r-readr" ,r-readr) + ("r-reshape2" ,r-reshape2) + ("r-rtracklayer" ,r-rtracklayer) + ("r-stringr" ,r-stringr) + ("r-tibble" ,r-tibble) + ("r-tximeta" ,r-tximeta) + ("r-tximport" ,r-tximport) + ("r-venndiagram" ,r-venndiagram) + ("r-xvector" ,r-xvector))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://bioconductor.org/packages/IsoformSwitchAnalyzeR/") + (synopsis "Analyze alternative splicing in RNA-seq data") + (description + "This is a package for the analysis of alternative splicing and isoform +switches with predicted functional consequences (e.g. gain/loss of protein +domains etc.) from quantification of all types of RNASeq by tools such as +Kallisto, Salmon, StringTie, Cufflinks/Cuffdiff etc.") + (license license:gpl2+))) + ;; This is a CRAN package, but it depends on r-biobase and r-limma from Bioconductor. (define-public r-absfiltergsea (package |