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SNPlocs.Hsapiens.dbSNP149.GRCh38

SNP locations for Homo sapiens (dbSNP Build 149)


Bioconductor version: Release (3.18)

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 "4.3") 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

Reference Manual PDF

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
System Requirements
URL
See More
Suggests Biostrings, BSgenome.Hsapiens.UCSC.hg38
Linking To
Enhances
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.v3.1.2.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 Binary (x86_64)
macOS Binary (arm64)
Package Short Url https://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP149.GRCh38/
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