SNPlocs.Hsapiens.dbSNP142.GRCh37

Package: SNPlocs.Hsapiens.dbSNP142.GRCh37
Title: SNP locations for Homo sapiens (dbSNP Build 142)
Description: SNP locations and alleles for Homo sapiens extracted from
NCBI dbSNP Build 142. The source data files used for this
package were created by NCBI on October 14, 2014, and contain
SNPs mapped to reference genome GRCh37.p13.
WARNING: Note that the GRCh37.p13 genome is a patched version of
GRCh37 but the patch doesn't alter chromosomes 1-22, X, Y, MT.
GRCh37 itself is the same as the hg19 genome from UCSC *except*
for the mitochondrion chromosome. Therefore, the SNPs in this
package can be "injected" in BSgenome.Hsapiens.UCSC.hg19 and they
will land at the correct location but this injection will exclude
chrM (i.e. nothing will be injected in that sequence).
Version: 0.99.5
Author: Herv'e Pag`es
Maintainer: Simon Coetzee <simon.coetzee@cshs.org>
Depends: R (>= 2.10), IRanges, GenomeInfoDb, GenomicRanges, BSgenome
(>= 1.25.6)
Imports: methods, utils, IRanges, GenomeInfoDb, GenomicRanges, BSgenome
Suggests: Biostrings, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Hsapiens.UCSC.hg19.masked (>= 1.3.19)
License: Artistic-2.0
organism: Homo sapiens
species: Human
provider: dbSNP
provider_version: 20141014
release_date: October 14, 2014
release_name: Build 142
reference_genome: GRCh37.p13
download_url:
ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b142_GRCh37p13/ASN1_flat/
download_date: April 10, 2015
biocViews: AnnotationData, Genetics, Homo_sapiens
NeedsCompilation: no
Packaged: 2015-05-01 00:10:59 UTC; hpages

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'SNPlocs.Hsapiens.dbSNP142.GRCh37' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'SNPlocs.Hsapiens.dbSNP142.GRCh37'
    finding HTML links ... done
    getSNPlocs                              html  
Rd warning: /tmp/RtmpS3eWY4/R.INSTALL700327ba6827/SNPlocs.Hsapiens.dbSNP142.GRCh37/man/getSNPlocs.Rd:43: missing file link 'GRanges'
Rd warning: /tmp/RtmpS3eWY4/R.INSTALL700327ba6827/SNPlocs.Hsapiens.dbSNP142.GRCh37/man/getSNPlocs.Rd:98: missing file link 'GRanges'
Rd warning: /tmp/RtmpS3eWY4/R.INSTALL700327ba6827/SNPlocs.Hsapiens.dbSNP142.GRCh37/man/getSNPlocs.Rd:101: missing file link 'GRanges'
Rd warning: /tmp/RtmpS3eWY4/R.INSTALL700327ba6827/SNPlocs.Hsapiens.dbSNP142.GRCh37/man/getSNPlocs.Rd:112: missing file link 'GRanges'
Rd warning: /tmp/RtmpS3eWY4/R.INSTALL700327ba6827/SNPlocs.Hsapiens.dbSNP142.GRCh37/man/getSNPlocs.Rd:127: missing file link 'findOverlaps'
    package                                 html  
** building package indices
** testing if installed package can be loaded
* DONE (SNPlocs.Hsapiens.dbSNP142.GRCh37)
Making 'packages.html' ... done