gnu: Add r-annotationhub.
* gnu/packages/bioinformatics.scm (r-annotationhub): New variable.
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@ -9255,6 +9255,40 @@ global-scaling and full-quantile normalization.")
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Shiny-based display methods for Bioconductor objects.")
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Shiny-based display methods for Bioconductor objects.")
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(license license:artistic2.0)))
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(license license:artistic2.0)))
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(define-public r-annotationhub
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(package
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(name "r-annotationhub")
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(version "2.8.2")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "AnnotationHub" version))
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(sha256
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(base32
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"1nh5si3j1nv37jcg4260582ayjg18851np47cskrm54prnvhwd9r"))))
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(properties `((upstream-name . "AnnotationHub")))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-annotationdbi" ,r-annotationdbi)
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("r-biocgenerics" ,r-biocgenerics)
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("r-biocinstaller" ,r-biocinstaller)
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("r-httr" ,r-httr)
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("r-interactivedisplaybase" ,r-interactivedisplaybase)
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("r-rsqlite" ,r-rsqlite)
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("r-s4vectors" ,r-s4vectors)
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("r-yaml" ,r-yaml)))
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(home-page "http://bioconductor.org/packages/AnnotationHub")
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(synopsis "Client to access AnnotationHub resources")
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(description
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"This package provides a client for the Bioconductor AnnotationHub web
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resource. The AnnotationHub web resource provides a central location where
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genomic files (e.g. VCF, bed, wig) and other resources from standard
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locations (e.g. UCSC, Ensembl) can be discovered. The resource includes
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metadata about each resource, e.g., a textual description, tags, and date of
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modification. The client creates and manages a local cache of files retrieved
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by the user, helping with quick and reproducible access.")
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(license license:artistic2.0)))
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(define htslib-for-sambamba
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(define htslib-for-sambamba
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(let ((commit "2f3c3ea7b301f9b45737a793c0b2dcf0240e5ee5"))
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(let ((commit "2f3c3ea7b301f9b45737a793c0b2dcf0240e5ee5"))
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(package
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(package
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