ensemblVEP

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see ensemblVEP.

R Interface to Ensembl Variant Effect Predictor

Installation

To install this package, start R (version "3.5") and enter:

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

BiocManager::install("ensemblVEP")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ensemblVEP")

ensemblVEP	PDF	R Script
PreV90EnsemblVEP	PDF	R Script
Reference Manual	PDF
README	Text
NEWS	Text

Details

biocViews	Annotation, SNP, Software, VariantAnnotation
Version	1.24.2
In Bioconductor since	BioC 2.12 (R-3.0) (11 years)
License	Artistic-2.0
Depends	methods, BiocGenerics, GenomicRanges, VariantAnnotation
Imports	S4Vectors(>= 0.9.25), Biostrings, SummarizedExperiment, GenomeInfoDb, stats
System Requirements	Ensembl VEP (API version 96) and the Perl modules DBI and DBD::mysql must be installed. See the package README and Ensembl installation instructions: http://www.ensembl.org/info/docs/tools/vep/script/vep_download.html#installer
URL

See More

Suggests	RUnit
Linking To
Enhances
Depends On Me
Imports Me	TVTB
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	ensemblVEP_1.24.2.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)	ensemblVEP_1.24.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ensemblVEP
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ensemblVEP
Bioc Package Browser	https://code.bioconductor.org/browse/ensemblVEP/
Package Short Url	https://bioconductor.org/packages/ensemblVEP/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.8	Source Archive