ryan77627/guix
1
0
Fork 0
mirror of https://git.in.rschanz.org/ryan77627/guix.git synced 2024-12-25 13:58:15 -05:00
Code Issues Projects Releases Packages Wiki Activity Actions

gnu: Add r-bsgenome-mmusculus-ucsc-mm9-masked.

Browse source 
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm9-masked): New
variable.
This commit is contained in:
Ricardo Wurmus 2018-06-15 07:27:29 +02:00
parent 6fbd759b13
commit 2bece692a6
No known key found for this signature in database
GPG key ID: 197A5888235FACAC
1 changed files with 35 additions and 0 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

35
gnu/packages/bioconductor.scm
View file

@ -131,6 +131,41 @@ (define-public r-bsgenome-hsapiens-ucsc-hg19-masked
default.") default.")
(license license:artistic2.0))) (license license:artistic2.0)))
(define-public r-bsgenome-mmusculus-ucsc-mm9-masked
(package
(name "r-bsgenome-mmusculus-ucsc-mm9-masked")
(version "1.3.99")
(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 "http://www.bioconductor.org/packages/"
"release/data/annotation/src/contrib/"
"BSgenome.Mmusculus.UCSC.mm9.masked_"
version ".tar.gz"))
(sha256
(base32
"00bpbm3havqcxr4g63zhllsbpd9q6svgihks7qp7x73nm4gvq7fn"))))
(properties
`((upstream-name . "BSgenome.Mmusculus.UCSC.mm9.masked")))
(build-system r-build-system)
(propagated-inputs
`(("r-bsgenome" ,r-bsgenome)
("r-bsgenome-mmusculus-ucsc-mm9"
,r-bsgenome-mmusculus-ucsc-mm9)))
(home-page "http://bioconductor.org/packages/BSgenome.Mmusculus.UCSC.mm9.masked/")
(synopsis "Full masked genome sequences for Mouse")
(description
"This package provides full genome sequences for Mus musculus (Mouse) as
provided by UCSC (mm9, Jul. 2007) and stored in Biostrings objects. The
sequences are the same as in BSgenome.Mmusculus.UCSC.mm9, except that each of
them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS
mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of
repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem
Repeats Finder (TRF mask). Only the AGAPS and AMB masks are \"active\" by
default." )
(license license:artistic2.0)))
(define-public r-hpar (define-public r-hpar
(package (package
(name "r-hpar") (name "r-hpar")