-(define-public r-bsgenome-hsapiens-ucsc-hg19
- (package
- (name "r-bsgenome-hsapiens-ucsc-hg19")
- (version "1.4.0")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Hsapiens.UCSC.hg19_"
- version ".tar.gz"))
- (sha256
- (base32
- "1y0nqpk8cw5a34sd9hmin3z4v7iqm6hf6l22cl81vlbxqbjibxc8"))))
- (properties
- `((upstream-name . "BSgenome.Hsapiens.UCSC.hg19")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
- "https://www.bioconductor.org/packages/BSgenome.Hsapiens.UCSC.hg19/")
- (synopsis "Full genome sequences for Homo sapiens")
- (description
- "This package provides full genome sequences for Homo sapiens as provided
-by UCSC (hg19, February 2009) and stored in Biostrings objects.")
- (license license:artistic2.0)))
-
-(define-public r-bsgenome-mmusculus-ucsc-mm9
- (package
- (name "r-bsgenome-mmusculus-ucsc-mm9")
- (version "1.4.0")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Mmusculus.UCSC.mm9_"
- version ".tar.gz"))
- (sha256
- (base32
- "1birqw30g2azimxpnjfzmkphan7x131yy8b9h85lfz5fjdg7841i"))))
- (properties
- `((upstream-name . "BSgenome.Mmusculus.UCSC.mm9")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
- "https://www.bioconductor.org/packages/BSgenome.Mmusculus.UCSC.mm9/")
- (synopsis "Full genome sequences for Mouse")
- (description
- "This package provides full genome sequences for Mus musculus (Mouse) as
-provided by UCSC (mm9, July 2007) and stored in Biostrings objects.")
- (license license:artistic2.0)))
-
-(define-public r-bsgenome-mmusculus-ucsc-mm10
- (package
- (name "r-bsgenome-mmusculus-ucsc-mm10")
- (version "1.4.0")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Mmusculus.UCSC.mm10_"
- version ".tar.gz"))
- (sha256
- (base32
- "12s0nm2na9brjad4rn9l7d3db2aj8qa1xvz0y1k7gk08wayb6bkf"))))
- (properties
- `((upstream-name . "BSgenome.Mmusculus.UCSC.mm10")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
- "https://www.bioconductor.org/packages/BSgenome.Mmusculus.UCSC.mm10/")
- (synopsis "Full genome sequences for Mouse")
- (description
- "This package provides full genome sequences for Mus
-musculus (Mouse) as provided by UCSC (mm10, December 2011) and stored
-in Biostrings objects.")
- (license license:artistic2.0)))
-
-(define-public r-txdb-mmusculus-ucsc-mm10-knowngene
- (package
- (name "r-txdb-mmusculus-ucsc-mm10-knowngene")
- (version "3.4.4")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "TxDb.Mmusculus.UCSC.mm10.knownGene_"
- version ".tar.gz"))
- (sha256
- (base32
- "01lgxc1fx5nhlpbwjd5zqghkkbmh6axd98ikx4b0spv0jdg6gf39"))))
- (properties
- `((upstream-name . "TxDb.Mmusculus.UCSC.mm10.knownGene")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)
- ("r-genomicfeatures" ,r-genomicfeatures)
- ("r-annotationdbi" ,r-annotationdbi)))
- (home-page
- "https://bioconductor.org/packages/TxDb.Mmusculus.UCSC.mm10.knownGene/")
- (synopsis "Annotation package for TxDb knownGene object(s) for Mouse")
- (description
- "This package loads a TxDb object, which is an R interface to
-prefabricated databases contained in this package. This package provides
-the TxDb object of Mouse data as provided by UCSC (mm10, December 2011)
-based on the knownGene track.")
- (license license:artistic2.0)))
-
-(define-public r-bsgenome-celegans-ucsc-ce6
- (package
- (name "r-bsgenome-celegans-ucsc-ce6")
- (version "1.4.0")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Celegans.UCSC.ce6_"
- version ".tar.gz"))
- (sha256
- (base32
- "0mqzb353xv2c3m3vkb315dkmnxkgczp7ndnknyhpgjlybyf715v9"))))
- (properties
- `((upstream-name . "BSgenome.Celegans.UCSC.ce6")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
- "https://www.bioconductor.org/packages/BSgenome.Celegans.UCSC.ce6/")
- (synopsis "Full genome sequences for Worm")
- (description
- "This package provides full genome sequences for Caenorhabditis
-elegans (Worm) as provided by UCSC (ce6, May 2008) and stored in Biostrings
-objects.")
- (license license:artistic2.0)))
-
-(define-public r-bsgenome-celegans-ucsc-ce10
- (package
- (name "r-bsgenome-celegans-ucsc-ce10")
- (version "1.4.0")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Celegans.UCSC.ce10_"
- version ".tar.gz"))
- (sha256
- (base32
- "1zaym97jk4npxk14ifvwz2rvhm4zx9xgs33r9vvx9rlynp0gydrk"))))
- (properties
- `((upstream-name . "BSgenome.Celegans.UCSC.ce10")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
- "https://www.bioconductor.org/packages/BSgenome.Celegans.UCSC.ce10/")
- (synopsis "Full genome sequences for Worm")
- (description
- "This package provides full genome sequences for Caenorhabditis
-elegans (Worm) as provided by UCSC (ce10, Oct 2010) and stored in Biostrings
-objects.")
- (license license:artistic2.0)))
-
-(define-public r-bsgenome-dmelanogaster-ucsc-dm3
- (package
- (name "r-bsgenome-dmelanogaster-ucsc-dm3")
- (version "1.4.0")
- (source (origin
- (method url-fetch)
- ;; We cannot use bioconductor-uri here because this tarball is
- ;; located under "data/annotation/" instead of "bioc/".
- (uri (string-append "https://www.bioconductor.org/packages/"
- "release/data/annotation/src/contrib/"
- "BSgenome.Dmelanogaster.UCSC.dm3_"
- version ".tar.gz"))
- (sha256
- (base32
- "19bm3lkhhkag3gnwp419211fh0cnr0x6fa0r1lr0ycwrikxdxsv8"))))
- (properties
- `((upstream-name . "BSgenome.Dmelanogaster.UCSC.dm3")))
- (build-system r-build-system)
- ;; As this package provides little more than a very large data file it
- ;; doesn't make sense to build substitutes.
- (arguments `(#:substitutable? #f))
- (propagated-inputs
- `(("r-bsgenome" ,r-bsgenome)))
- (home-page
- "https://www.bioconductor.org/packages/BSgenome.Dmelanogaster.UCSC.dm3/")
- (synopsis "Full genome sequences for Fly")
- (description
- "This package provides full genome sequences for Drosophila
-melanogaster (Fly) as provided by UCSC (dm3, April 2006) and stored in
-Biostrings objects.")
- (license license:artistic2.0)))
-