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.dbSNP144.GRCh37")

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

SNPlocs.Hsapiens.dbSNP144.GRCh37

DOI: 10.18129/B9.bioc.SNPlocs.Hsapiens.dbSNP144.GRCh37    

This is the development version of SNPlocs.Hsapiens.dbSNP144.GRCh37; for the stable release version, see SNPlocs.Hsapiens.dbSNP144.GRCh37.

SNP locations for Homo sapiens (dbSNP Build 144)

Bioconductor version: Development (3.7)

SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. The source data files used for this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped to reference genome GRCh37.p13. WARNING: Note that the GRCh37.p13 genome is a patched version of GRCh37. However 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 position but this injection will exclude chrM (i.e. nothing will be injected in that sequence).

Author: Hervé Pagès

Maintainer: H. Pagès <hpages at fredhutch.org>

Citation (from within R, enter citation("SNPlocs.Hsapiens.dbSNP144.GRCh37")):

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.dbSNP144.GRCh37")

Documentation

PDF   Reference Manual

Details

biocViews AnnotationData, Genetics, Homo_sapiens, SNPlocs
Version 0.99.20
License Artistic-2.0
Depends BSgenome(>= 1.43.4)
Imports methods, utils, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, BSgenome
LinkingTo
Suggests Biostrings, BSgenome.Hsapiens.UCSC.hg19
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me AllelicImbalance, cheung2010, GenomicScores, GGtools, ramwas, VariantFiltering, XtraSNPlocs.Hsapiens.dbSNP144.GRCh37

Package Archives

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

Source Package SNPlocs.Hsapiens.dbSNP144.GRCh37_0.99.20.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Package Short Url http://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP144.GRCh37/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: