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gnu: Add r-bsgenome-hsapiens-ucsc-hg19-masked.
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-ucsc-hg19-masked): New variable.
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@ -96,6 +96,41 @@ (define-public r-bsgenome-dmelanogaster-ucsc-dm3-masked
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Finder (TRF mask). Only the AGAPS and AMB masks are \"active\" by default.")
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(license license:artistic2.0)))
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(define-public r-bsgenome-hsapiens-ucsc-hg19-masked
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(package
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(name "r-bsgenome-hsapiens-ucsc-hg19-masked")
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(version "1.3.99")
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(source (origin
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(method url-fetch)
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;; We cannot use bioconductor-uri here because this tarball is
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;; located under "data/annotation/" instead of "bioc/".
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(uri (string-append "http://www.bioconductor.org/packages/"
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"release/data/annotation/src/contrib/"
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"BSgenome.Hsapiens.UCSC.hg19.masked_"
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version ".tar.gz"))
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(sha256
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(base32
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"0452pyah0kv1vsrsjbrqw4k2rm8lc2vc771dzib45gnnfz86qxrr"))))
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(properties
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`((upstream-name . "BSgenome.Hsapiens.UCSC.hg19.masked")))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-bsgenome" ,r-bsgenome)
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("r-bsgenome-hsapiens-ucsc-hg19"
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,r-bsgenome-hsapiens-ucsc-hg19)))
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(home-page "https://bioconductor.org/packages/BSgenome.Hsapiens.UCSC.hg19.masked/")
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(synopsis "Full masked genome sequences for Homo sapiens")
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(description
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"This package provides full genome sequences for Homo sapiens (Human) as
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provided by UCSC (hg19, Feb. 2009) and stored in Biostrings objects. The
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sequences are the same as in BSgenome.Hsapiens.UCSC.hg19, except that each of
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them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS
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mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of
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repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem
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Repeats Finder (TRF mask). Only the AGAPS and AMB masks are \"active\" by
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default.")
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(license license:artistic2.0)))
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(define-public r-hpar
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(package
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(name "r-hpar")
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