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| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2020-12-16 23:15:33 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2020-12-17 11:26:53 +0100 |
| commit | e4b0794e52d952da655953285c7ad793b3708418 (patch) | |
| tree | 69ce6398d211a94c0e55c205594bd0f380d29c1a /gnu/packages | |
| parent | 7395458d40e156d683a0ce3604c19b38f4488c13 (diff) | |
| download | guix-patches-e4b0794e52d952da655953285c7ad793b3708418.tar guix-patches-e4b0794e52d952da655953285c7ad793b3708418.tar.gz | |
gnu: Add r-pathview.
* gnu/packages/bioconductor.scm (r-pathview): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 34 |
1 files changed, 34 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 9189e53d17..195128a190 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -9239,3 +9239,37 @@ graphs. It parses the regularly updated kgml (Kegg XML) files into graph models maintaining all essential pathway attributes. The package offers functionalities including parsing, graph operation, visualization and etc.") (license license:gpl2+))) + +(define-public r-pathview + (package + (name "r-pathview") + (version "1.30.1") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "pathview" version)) + (sha256 + (base32 "11fisiksw1y64ii9q8p2znyp9w8mlqzgiaacmycw59rngkjlmbs4")))) + (properties `((upstream-name . "pathview"))) + (build-system r-build-system) + (propagated-inputs + `(("r-annotationdbi" ,r-annotationdbi) + ("r-graph" ,r-graph) + ("r-kegggraph" ,r-kegggraph) + ("r-keggrest" ,r-keggrest) + ("r-org-hs-eg-db" ,r-org-hs-eg-db) + ("r-png" ,r-png) + ("r-rgraphviz" ,r-rgraphviz) + ("r-xml" ,r-xml))) + (home-page "https://pathview.uncc.edu/") + (synopsis "Tool set for pathway based data integration and visualization") + (description + "@code{r-pathview} is a tool set for pathway based data integration and +visualization. It maps and renders a wide variety of biological data on +relevant pathway graphs. All users need is to supply their data and specify +the target pathway. This package automatically downloads the pathway graph +data, parses the data file, maps user data to the pathway, and render pathway +graph with the mapped data. In addition, @code{r-pathview} also seamlessly +integrates with pathway and gene set (enrichment) analysis tools for +large-scale and fully automated analysis.") + (license license:gpl3+))) |