To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("ensemblVEP")

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

ensemblVEP

 

R Interface to Ensembl Variant Effect Predictor

Bioconductor version: Release (3.1)

Query the Ensembl Variant Effect Predictor via the perl API

Author: Valerie Obenchain <vobencha at fhcrc.org>,

Maintainer: Valerie Obenchain <vobencha at fhcrc.org>

Citation (from within R, enter citation("ensemblVEP")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("ensemblVEP")

Documentation

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

browseVignettes("ensemblVEP")

 

PDF R Script ensemblVEP
PDF   Reference Manual
Text   README
Text   NEWS

Details

biocViews Annotation, SNP, Software, VariantAnnotation
Version 1.8.1
In Bioconductor since BioC 2.12 (R-3.0) (2 years)
License Artistic-2.0
Depends methods, BiocGenerics, GenomicRanges, VariantAnnotation
Imports Biostrings
LinkingTo
Suggests RUnit
SystemRequirements Ensembl VEP (API version 80) and the Perl package DBD::mysql must be installed. See the package README and Ensembl web site, http://www.ensembl.org/info/docs/tools/vep/index.html for installation instructions.
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source ensemblVEP_1.8.1.tar.gz
Windows Binary ensemblVEP_1.8.1.zip
Mac OS X 10.6 (Snow Leopard) ensemblVEP_1.8.1.tgz
Mac OS X 10.9 (Mavericks) ensemblVEP_1.8.1.tgz
Browse/checkout source (username/password: readonly)
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:

Fred Hutchinson Cancer Research Center