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| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2022-06-23 12:25:20 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-10-27 16:40:18 +0200 |
| commit | c0278aa51e08bc5c9916f2b58b7b45676863844f (patch) | |
| tree | 7bfd130407540f6ea22a1fef335e93ab469495db | |
| parent | 70d30096b38f4d1d23d84aaae34400e3d8abd797 (diff) | |
| download | guix-c0278aa51e08bc5c9916f2b58b7b45676863844f.tar.gz | |
gnu: Add r-atena.
* gnu/packages/bioconductor.scm (r-atena): New variable.
| -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 6e72a8e1af..038532c915 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2317,6 +2317,47 @@ reproducible gene expression signatures capable of accurately distinguishing tumor samples from healthy controls.") (license license:artistic2.0))) +(define-public r-atena + (package + (name "r-atena") + (version "1.2.2") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "atena" version)) + (sha256 + (base32 + "0b89wb7cc44c8jd6868dn8pwgid768bprkncsi87qkdz0abbhzhp")))) + (properties `((upstream-name . "atena"))) + (build-system r-build-system) + (propagated-inputs + (list r-annotationhub + r-biocgenerics + r-biocparallel + r-genomeinfodb + r-genomicalignments + r-genomicranges + r-iranges + r-matrix + r-rsamtools + r-s4vectors + r-scales + r-sparsematrixstats + r-squarem + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/functionalgenomics/atena") + (synopsis "Analysis of transposable elements") + (description + "The atena package quantifies expression of @dfn{TEs} (transposable +elements) from RNA-seq data through different methods, including ERVmap, +TEtranscripts and Telescope. A common interface is provided to use each of +these methods, which consists of building a parameter object, calling the +quantification function with this object and getting a +@code{SummarizedExperiment} object as an output container of the quantified +expression profiles. The implementation allows quantifing TEs and gene +transcripts in an integrated manner.") + (license license:artistic2.0))) + (define-public r-atsnp (package (name "r-atsnp") |