From aed1504837ee7a485db437d32526d68ff9a76825 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Tue, 7 Sep 2021 12:16:47 +0200 Subject: gnu: Add r-biomformat. * gnu/packages/bioconductor.scm (r-biomformat): New variable. --- gnu/packages/bioconductor.scm | 32 ++++++++++++++++++++++++++++++++ 1 file changed, 32 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index e1adb87738..52f8f79722 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -14118,6 +14118,38 @@ the development of new database connectors for local projects or inside separate published packages.") (license license:agpl3+))) +(define-public r-biomformat + (package + (name "r-biomformat") + (version "1.20.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "biomformat" version)) + (sha256 + (base32 + "1wgshkddxbmpsihpkm0dp7vqp59ns6iqbx574y80n2pxb8dx8sy9")))) + (properties `((upstream-name . "biomformat"))) + (build-system r-build-system) + (propagated-inputs + `(("r-jsonlite" ,r-jsonlite) + ("r-matrix" ,r-matrix) + ("r-plyr" ,r-plyr) + ("r-rhdf5" ,r-rhdf5))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/joey711/biomformat/") + (synopsis "Interface package for the BIOM file format") + (description + "This is an R package for interfacing with the BIOM format. This package +includes basic tools for reading biom-format files, accessing and subsetting +data tables from a biom object (which is more complex than a single table), as +well as limited support for writing a biom-object back to a biom-format file. +The design of this API is intended to match the Python API and other tools +included with the biom-format project, but with a decidedly \"R flavor\" that +should be familiar to R users. This includes S4 classes and methods, as well +as extensions of common core functions/methods.") + (license license:gpl2))) + (define-public r-tximeta (package (name "r-tximeta") -- cgit v1.2.3