SNPlocs.Hsapiens.dbSNP.20110815

SNP locations for Homo sapiens (dbSNP Build 134)

Bioconductor version: Development (3.0)

SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 134. The source data files used for this package were created by NCBI on Aug 15, 2011, and contain SNPs mapped to reference genome GRCh37.p2. WARNING: Note that the GRCh37.p2 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>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("SNPlocs.Hsapiens.dbSNP.20110815")

To cite this package in a publication, start R and enter:

    citation("SNPlocs.Hsapiens.dbSNP.20110815")

Documentation

PDF   Reference Manual

Details

biocViews AnnotationData, Genetics, Homo_sapiens
Version 0.99.6
License Artistic-2.0
Depends R (>= 2.10), IRanges, GenomicRanges
Imports methods, IRanges, GenomicRanges
Suggests Biostrings, BSgenome(>= 1.16.1), BSgenome.Hsapiens.UCSC.hg19
System Requirements
URL
Depends On Me
Imports Me
Suggests Me VariantAnnotation

Package Downloads

Package Source SNPlocs.Hsapiens.dbSNP.20110815_0.99.6.tar.gz
Windows Binary SNPlocs.Hsapiens.dbSNP.20110815_0.99.6.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
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