SNPlocs.Hsapiens.dbSNP149.GRCh38

DOI: 10.18129/B9.bioc.SNPlocs.Hsapiens.dbSNP149.GRCh38    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see SNPlocs.Hsapiens.dbSNP149.GRCh38.

SNP locations for Homo sapiens (dbSNP Build 149)

Bioconductor version: 3.14

SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 149. The source data files used for this package were created by NCBI between November 8-12, 2016, and contain SNPs mapped to reference genome GRCh38.p7 (a patched version of GRCh38 that doesn't alter chromosomes 1-22, X, Y, MT). Note that these SNPs can be "injected" in BSgenome.Hsapiens.NCBI.GRCh38 or in BSgenome.Hsapiens.UCSC.hg38.

Author: Hervé Pagès

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

Citation (from within R, enter citation("SNPlocs.Hsapiens.dbSNP149.GRCh38")):

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("SNPlocs.Hsapiens.dbSNP149.GRCh38")

For older versions of R, please refer to the appropriate Bioconductor release.

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.hg38
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me MafDb.1Kgenomes.phase1.GRCh38, MafDb.1Kgenomes.phase3.GRCh38, MafDb.ExAC.r1.0.GRCh38, MafDb.ExAC.r1.0.nonTCGA.GRCh38, MafDb.gnomAD.r2.1.GRCh38, MafDb.gnomADex.r2.1.GRCh38, MafDb.TOPMed.freeze5.hg38, MafH5.gnomAD.v3.1.1.GRCh38
Links To Me

Package Archives

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

Source Package SNPlocs.Hsapiens.dbSNP149.GRCh38_0.99.20.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Package Short Url https://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP149.GRCh38/
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: