Annotation of Genetic Variants

Bioconductor version: Release (2.12)

Annotate variants, compute amino acid coding changes, predict coding outcomes

Author: Valerie Obenchain, Martin Morgan, Michael Lawrence with contributions from Stephanie Gogarten.

Maintainer: Valerie Obenchain <vobencha at>

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PDF R Script filterVcf Overview
PDF R Script Introduction to VariantAnnotation
PDF   Reference Manual
Text   NEWS


biocViews Annotation, DataImport, Genetics, HighThroughputSequencing, Homo_sapiens, SNP, Sequencing, Software
Version 1.6.8
In Bioconductor since BioC 2.9 (R-2.14)
License Artistic-2.0
Depends R (>= 2.8.0), methods, BiocGenerics, GenomicRanges(>= 1.11.29), Rsamtools(>= 1.11.26), IRanges(>= 1.17.4)
Imports methods, BiocGenerics, IRanges, Biostrings, Biobase, Rsamtools, AnnotationDbi(>= 1.17.11), zlibbioc, BSgenome, GenomicFeatures(>= 1.9.35), DBI, utils
Suggests RUnit, BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, SNPlocs.Hsapiens.dbSNP.20110815, SNPlocs.Hsapiens.dbSNP.20101109, SIFT.Hsapiens.dbSNP132, PolyPhen.Hsapiens.dbSNP131, snpStats, ggplot2
System Requirements
Depends On Me cgdv17, ensemblVEP, PolyPhen.Hsapiens.dbSNP131, SIFT.Hsapiens.dbSNP132, VariantTools
Imports Me FunciSNP, ggbio, GGtools, gmapR, HTSeqGenie, R453Plus1Toolbox, VariantTools
Suggests Me GenomicRanges, gmapR, GWASTools

Package Downloads

Package Source VariantAnnotation_1.6.8.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) VariantAnnotation_1.6.8.tgz
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