BSgenome.Rnorvegicus.UCSC.rn5.masked

Package: BSgenome.Rnorvegicus.UCSC.rn5.masked
Title: Full masked genome sequences for Rattus norvegicus (UCSC version
rn5)
Description: Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn5, Mar. 2012) and stored in Biostrings objects. The sequences are the same as in BSgenome.Rnorvegicus.UCSC.rn5, 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.
Version: 1.3.99
Author: The Bioconductor Dev Team
Maintainer: Bioconductor Package Maintainer
<maintainer@bioconductor.org>
Depends: BSgenome (>= 1.31.8), BSgenome.Rnorvegicus.UCSC.rn5
Imports: BSgenome, BSgenome.Rnorvegicus.UCSC.rn5
License: Artistic-2.0
organism: Rattus norvegicus
species: Rat
provider: UCSC
provider_version: rn5
release_date: Mar. 2012
release_name: RGSC 5.0
source_url: http://hgdownload.cse.ucsc.edu/goldenPath/rn5/bigZips/
biocViews: AnnotationData, Genetics, BSgenome, Rattus_norvegicus
Packaged: 2014-01-08 20:14:05 UTC; hpages

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'BSgenome.Rnorvegicus.UCSC.rn5.masked' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'BSgenome.Rnorvegicus.UCSC.rn5.masked'
    finding HTML links ... done
    package                                 html  
Rd warning: /tmp/RtmpIVCSMA/R.INSTALL7c0a5b5c7d46/BSgenome.Rnorvegicus.UCSC.rn5.masked/man/package.Rd:27: missing file link 'BSgenome.Rnorvegicus.UCSC.rn5'
Rd warning: /tmp/RtmpIVCSMA/R.INSTALL7c0a5b5c7d46/BSgenome.Rnorvegicus.UCSC.rn5.masked/man/package.Rd:40: missing file link 'BSgenome.Rnorvegicus.UCSC.rn5'
Rd warning: /tmp/RtmpIVCSMA/R.INSTALL7c0a5b5c7d46/BSgenome.Rnorvegicus.UCSC.rn5.masked/man/package.Rd:42: missing file link 'BSgenome'
Rd warning: /tmp/RtmpIVCSMA/R.INSTALL7c0a5b5c7d46/BSgenome.Rnorvegicus.UCSC.rn5.masked/man/package.Rd:45: missing file link 'MaskedDNAString'
** building package indices
** testing if installed package can be loaded
* DONE (BSgenome.Rnorvegicus.UCSC.rn5.masked)
Making 'packages.html' ... done