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. 2014 Jul 15;30(14):2076-8.
doi: 10.1093/bioinformatics/btu168. Epub 2014 Mar 28.

VariantAnnotation: a Bioconductor package for exploration and annotation of genetic variants

Valerie Obenchain  1 , Michael Lawrence  1 , Vincent Carey  1 , Stephanie Gogarten  1 , Paul Shannon  1 , Martin Morgan  1
Affiliations

VariantAnnotation: a Bioconductor package for exploration and annotation of genetic variants

Valerie Obenchain et al. Bioinformatics. .

Abstract

VariantAnnotation is an R / Bioconductor package for the exploration and annotation of genetic variants. Capabilities exist for reading, writing and filtering variant call format (VCF) files. VariantAnnotation allows ready access to additional R / Bioconductor facilities for advanced statistical analysis, data transformation, visualization and integration with diverse genomic resources.

Availability and implementation: This package is implemented in R and available for download at the Bioconductor Web site (http://bioconductor.org/packages/2.13/bioc/html/VariantAnnotation.html). The package contains extensive help pages for individual functions and a 'vignette' outlining typical work flows; it is made available under the open source 'Artistic-2.0' license. Version 1.9.38 was used in this article.

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References

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