VariantAnnotation

Annotation of Genetic Variants

Bioconductor version: 2.10

Annotate variants with respect to location and amino acid coding

Author: Valerie Obenchain, Martin Morgan, Michael Lawrence

Maintainer: Valerie Obenchain <vobencha at fhcrc.org>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("VariantAnnotation")

PDF	R Script	Introduction to VariantAnnotation
PDF		Reference Manual
Text		NEWS

biocViews	Annotation, DataImport, Genetics, HighThroughputSequencing, Homo_sapiens, SNP, Sequencing, Software
Depends	R (>= 2.8.0), methods, GenomicRanges(>= 1.8.13), Rsamtools(>= 1.7.41)
Imports	methods, BiocGenerics(>= 0.1.0), IRanges(>= 1.13.5), Biobase(>= 2.15.1), Rsamtools(>= 1.7.41), AnnotationDbi(>= 1.17.11), Biostrings(>= 2.23.4), zlibbioc, BSgenome, GenomicFeatures, snpStats, DBI
Suggests	RUnit, BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, SNPlocs.Hsapiens.dbSNP.20110815, SIFT.Hsapiens.dbSNP132, PolyPhen.Hsapiens.dbSNP131
System Requirements
License	Artistic-2.0
URL
Depends On Me	cgdv17, PolyPhen.Hsapiens.dbSNP131, SIFT.Hsapiens.dbSNP132
Imports Me	ggbio, GGtools
Suggests Me	GenomicRanges
Version	1.2.11
Since	Bioconductor 2.9 (R-2.14)

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