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| -rw-r--r-- | gnu/packages/bioconductor.scm | 48 |
1 files changed, 48 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 9ecf42e783..a27845581f 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4022,6 +4022,54 @@ distributions, modules and filter motifs.") frequency matrices from nine public sources, for multiple organisms.") (license license:artistic2.0))) +(define-public r-motifbreakr + (package + (name "r-motifbreakr") + (version "2.0.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "motifbreakR" version)) + (sha256 + (base32 "190z8gj393qdpq5wz7gph96k0l8c1j9wd0p0llscysvk5kr1hf9n")))) + (properties `((upstream-name . "motifbreakR"))) + (build-system r-build-system) + (propagated-inputs + `(("r-grimport" ,r-grimport) + ("r-stringr" ,r-stringr) + ("r-biocgenerics" ,r-biocgenerics) + ("r-s4vectors" ,r-s4vectors) + ("r-iranges" ,r-iranges) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicranges" ,r-genomicranges) + ("r-biostrings" ,r-biostrings) + ("r-bsgenome" ,r-bsgenome) + ("r-rtracklayer" ,r-rtracklayer) + ("r-variantannotation" ,r-variantannotation) + ("r-biocparallel" ,r-biocparallel) + ("r-motifstack" ,r-motifstack) + ("r-gviz" ,r-gviz) + ("r-matrixstats" ,r-matrixstats) + ("r-tfmpvalue" ,r-tfmpvalue) + ("r-motifdb" ,r-motifdb))) + (home-page "https://www.bioconductor.org/packages/motifbreakR/") + (synopsis "Predicting disruptiveness of single nucleotide polymorphisms") + (description "This package allows biologists to judge in the first place +whether the sequence surrounding the polymorphism is a good match, and in +the second place how much information is gained or lost in one allele of +the polymorphism relative to another. This package gives a choice of +algorithms for interrogation of genomes with motifs from public sources: +@enumerate +@item a weighted-sum probability matrix; +@item log-probabilities; +@item weighted by relative entropy. +@end enumerate + +This package can predict effects for novel or previously described variants in +public databases, making it suitable for tasks beyond the scope of its original +design. Lastly, it can be used to interrogate any genome curated within +Bioconductor.") + (license license:gpl2+))) + (define-public r-motifstack (package (name "r-motifstack") |