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This is the development version of VariantAnnotation; for the stable release version, see VariantAnnotation.

Annotation of Genetic Variants

Bioconductor version: Development (3.20)

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

Author: Valerie Oberchain [aut], Martin Morgan [aut], Michael Lawrence [aut], Stephanie Gogarten [ctb], Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


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

1. Introduction to VariantAnnotation HTML R Script
2. Using filterVcf to Select Variants from VCF Files HTML R Script
ensemblVEP: using the REST API with Bioconductor HTML R Script
Reference Manual PDF
Reading VCF data Video


biocViews Annotation, DataImport, Genetics, SNP, Sequencing, Software, VariantAnnotation
Version 1.51.0
In Bioconductor since BioC 2.9 (R-2.14) (12.5 years)
License Artistic-2.0
Depends R (>= 4.0.0), methods, BiocGenerics(>= 0.37.0), MatrixGenerics, GenomeInfoDb(>= 1.15.2), GenomicRanges(>= 1.41.5), SummarizedExperiment(>= 1.19.5), Rsamtools(>= 2.19.1)
Imports utils, DBI, zlibbioc, Biobase, S4Vectors(>= 0.27.12), IRanges(>= 2.23.9), XVector(>= 0.29.2), Biostrings(>= 2.57.2), AnnotationDbi(>= 1.27.9), rtracklayer(>= 1.39.7), BSgenome(>= 1.47.3), GenomicFeatures(>= 1.31.3)
System Requirements GNU make
See More
Suggests RUnit, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, SNPlocs.Hsapiens.dbSNP144.GRCh37, SIFT.Hsapiens.dbSNP132, SIFT.Hsapiens.dbSNP137, PolyPhen.Hsapiens.dbSNP131, snpStats, ggplot2, BiocStyle, knitr, magick, jsonlite, httr, rjsoncons
Linking To S4Vectors, IRanges, XVector, Biostrings, Rhtslib(>= 2.99.0)
Depends On Me alabaster.vcf, annotation, CNVrd2, deepSNV, demuxSNP, HelloRanges, HTSeqGenie, myvariant, PolyPhen.Hsapiens.dbSNP131, PureCN, R453Plus1Toolbox, RareVariantVis, seqCAT, sequencing, SIFT.Hsapiens.dbSNP132, SIFT.Hsapiens.dbSNP137, signeR, SomaticSignatures, StructuralVariantAnnotation, svaNUMT, VariantFiltering, variants, VariantTools, VariantToolsData
Imports Me AllelicImbalance, APAlyzer, appreci8R, BadRegionFinder, BBCAnalyzer, biovizBase, biscuiteer, cardelino, CNVfilteR, CopyNumberPlots, COSMIC.67, crisprDesign, customProDB, DAMEfinder, decompTumor2Sig, DominoEffect, epialleleR, fcScan, GA4GHclient, GenomicFiles, GenVisR, ggbio, gmapR, gwascat, gwasurvivr, icetea, igvR, karyoploteR, katdetectr, lineagespot, MADSEQ, motifbreakR, MungeSumstats, musicatk, MutationalPatterns, ProteoDisco, RAIDS, scoreInvHap, SigsPack, SNPhood, svaRetro, tadar, TitanCNA, tLOH, transmogR, TVTB, Uniquorn, UPDhmm, VCFArray, YAPSA, ZygosityPredictor
Suggests Me alabaster.files, AnnotationHub, AshkenazimSonChr21, BiocParallel, cellbaseR, CrispRVariants, GenomicDataCommons, GenomicRanges, GenomicScores, GeuvadisTranscriptExpr, GWASTools, igvShiny, ldblock, omicsPrint, podkat, RVS, SeqArray, shiny.gosling, splatter, supersigs, systemPipeR, trackViewer, trio, vtpnet
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package VariantAnnotation_1.51.0.tar.gz
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macOS Binary (x86_64) VariantAnnotation_1.51.0.tgz
macOS Binary (arm64) VariantAnnotation_1.51.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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