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aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=mdc-berlin.de header.s=mdc header.b=fYVP80Kr; dmarc=fail reason="SPF not aligned (relaxed)" header.from=mdc-berlin.de (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Spam-Score: 2.17 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=mdc-berlin.de header.s=mdc header.b=fYVP80Kr; dmarc=fail reason="SPF not aligned (relaxed)" header.from=mdc-berlin.de (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Queue-Id: B760F37877 X-Spam-Score: 2.17 X-Migadu-Scanner: scn0.migadu.com X-TUID: K2qht9NQ7V5H * gnu/packages/bioconductor.scm (r-xnastring): New variable. --- gnu/packages/bioconductor.scm | 44 +++++++++++++++++++++++++++++++++++ 1 file changed, 44 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 90a0e1f288..abb5b7065d 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4627,6 +4627,50 @@ (define-public r-vsn and specific in detecting differential transcription.") (license license:artistic2.0))) +(define-public r-xnastring + (package + (name "r-xnastring") + (version "1.2.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "XNAString" version)) + (sha256 + (base32 "1rpcvn54a6s3iwmdg96rshilr1mqcb1nlbvzbyp5xi55km7iwm8i")))) + (properties `((upstream-name . "XNAString"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biostrings" ,r-biostrings) + ("r-bsgenome" ,r-bsgenome) + ("r-data-table" ,r-data-table) + ("r-formattable" ,r-formattable) + ("r-future-apply" ,r-future-apply) + ("r-genomicranges" ,r-genomicranges) + ("r-htmltools" ,r-htmltools) + ("r-htmlwidgets" ,r-htmlwidgets) + ("r-iranges" ,r-iranges) + ("r-rcpp" ,r-rcpp) + ("r-rmarkdown" ,r-rmarkdown) + ("r-s4vectors" ,r-s4vectors) + ("r-stringi" ,r-stringi) + ("r-stringr" ,r-stringr))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://git.bioconductor.org/packages/XNAString") + (synopsis "Manipulation of modified oligonucleotide sequences") + (description + "The R @code{XNAString} package allows for description of base sequences +and associated chemical modifications in a single object. XNAString is able to +capture single stranded, as well as double stranded molecules. Chemical +modifications are represented as independent strings associated with different +features of the molecules (base sequence, sugar sequence, backbone sequence, +modifications) and can be read or written to a @dfn{Hierarchical Editing +Language for Macromolecules} (HELM) notation. It also enables secondary +structure prediction using RNAfold from ViennaRNA. XNAString is designed to be +efficient representation of nucleic-acid based therapeutics, therefore it +stores information about target sequences and provides interface for matching +and alignment functions from Biostrings package.") + (license license:gpl2))) + (define-public r-xvector (package (name "r-xvector") -- 2.33.0