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| -rw-r--r-- | gnu/packages/bioconductor.scm | 41 |
1 files changed, 41 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index e74baccc99..62a24f4e4b 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -12298,6 +12298,47 @@ dependencies between GO terms can be implemented and applied.") ;; Any version of the LGPL applies. (license license:lgpl2.1+))) +(define-public r-txdbmaker + (package + (name "r-txdbmaker") + (version "1.0.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "txdbmaker" version)) + (sha256 + (base32 "099x6v4crp953jcgqipj0001kxg7gv5h0r4mmvh1cg7j69w0zd5m")))) + (properties `((upstream-name . "txdbmaker"))) + (build-system r-build-system) + (propagated-inputs (list r-annotationdbi + r-biobase + r-biocgenerics + r-biocio + r-biomart + r-dbi + r-genomeinfodb + r-genomicfeatures + r-genomicranges + r-httr + r-iranges + r-rjson + r-rsqlite + r-rtracklayer + r-s4vectors + r-ucsc-utils)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/txdbmaker") + (synopsis "Tools for making TxDb objects from genomic annotations") + (description + "This package provides a set of tools for making @code{TxDb} objects from +genomic annotations from various sources (e.g. UCSC, Ensembl, and GFF files). +These tools allow the user to download the genomic locations of transcripts, +exons, and CDS, for a given assembly, and to import them in a @code{TxDb} +object. @code{TxDb} objects are implemented in the @code{GenomicFeatures} +package, together with flexible methods for extracting the desired features in +convenient formats.") + (license license:artistic2.0))) + (define-public r-tximport (package (name "r-tximport") |