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Annotating Genomic Variants

Bioconductor version: Release (3.18)

Read and write VCF files. Identify structural location of variants and compute amino acid coding changes for non-synonymous variants. Use SIFT and PolyPhen database packages to predict consequence of amino acid coding changes.

Author: Valerie Obenchain [aut], Martin Morgan [ctb], Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

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


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


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Annotating Genomic Variants HTML R Script


biocViews AnnotationWorkflow, ImmunoOncologyWorkflow, Workflow
Version 1.26.0
License Artistic-2.0
Depends R (>= 3.3.0), VariantAnnotation, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome.Hsapiens.UCSC.hg19, PolyPhen.Hsapiens.dbSNP131
System Requirements
URL https://bioconductor.org/help/workflows/variants/
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Package Archives

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

Source Package variants_1.26.0.tar.gz
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Source Repository git clone https://git.bioconductor.org/packages/variants
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/variants
Package Short Url https://bioconductor.org/packages/variants/
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