SNPlocs.Hsapiens.dbSNP141.GRCh38

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see SNPlocs.Hsapiens.dbSNP141.GRCh38.

SNP locations for Homo sapiens (dbSNP Build 141)

Bioconductor version: 3.11

SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 141. The source data files used for this package were created by NCBI on May 1st, 2014, and contain SNPs mapped to reference genome GRCh38. Note that these SNPs can be "injected" in BSgenome.Hsapiens.NCBI.GRCh38 or in BSgenome.Hsapiens.UCSC.hg38. IMPORTANT NOTE: This package is deprecated. Please use a SNPlocs data package based on a more recent dbSNP BUILD instead (e.g. BUILD 144 or BUILD 149). You can call BSgenome::available.SNPs() from R to get the list of available SNPlocs data packages.

Author: Herve Pages

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

Citation (from within R, enter citation("SNPlocs.Hsapiens.dbSNP141.GRCh38")):

Installation

To install this package, start R (version "4.0") and enter:


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

BiocManager::install("SNPlocs.Hsapiens.dbSNP141.GRCh38")

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

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	AnnotationData, Genetics, Homo_sapiens, SNPlocs
Version	0.99.11
License	Artistic-2.0
Depends	R (>= 2.10), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, BSgenome(>= 1.33.9)
Imports	methods, utils, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, BSgenome
System Requirements
URL

Suggests	Biostrings, BSgenome.Hsapiens.NCBI.GRCh38(>= 1.3.19)
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	genotypeeval, XtraSNPlocs.Hsapiens.dbSNP141.GRCh38
Links To Me

Package Archives

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

Source Package	SNPlocs.Hsapiens.dbSNP141.GRCh38_0.99.11.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Package Short Url	https://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP141.GRCh38/
Package Downloads Report	Download Stats