To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SNPlocs.Hsapiens.dbSNP.20111119")

In most cases, you don't need to download the package archive at all.

SNPlocs.Hsapiens.dbSNP.20111119

SNP locations for Homo sapiens (dbSNP Build 135)

Bioconductor version: Release (3.4)

SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 135. The source data files used for this package were created by NCBI on Nov 18-19, 2011, and contain SNPs mapped to reference genome GRCh37.p5. WARNING: Note that the GRCh37.p5 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).

Author: Herve Pages

Maintainer: H. Pages <hpages at fhcrc.org>

Citation (from within R, enter citation("SNPlocs.Hsapiens.dbSNP.20111119")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SNPlocs.Hsapiens.dbSNP.20111119")

Documentation


PDF		Reference Manual

Details

biocViews	AnnotationData, Genetics, Homo_sapiens
Version	0.99.7
License	Artistic-2.0
Depends	R (>= 2.10), IRanges, GenomicRanges
Imports	methods, S4Vectors, IRanges, GenomicRanges
LinkingTo
Suggests	Biostrings, BSgenome(>= 1.16.1), BSgenome.Hsapiens.UCSC.hg19
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	FDb.UCSC.snp135common.hg19

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	SNPlocs.Hsapiens.dbSNP.20111119_0.99.7.tar.gz
Windows Binary
Mac OS X 10.9 (Mavericks)
Package Short Url	http://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP.20111119/
Package Downloads Report	Download Stats

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