## try http:// if https:// URLs are not supported source("//www.andersvercelli.com/biocLite.R") biocLite("VariantAnnotation")

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, seeVariantAnnotation.

Annotation of Genetic Variants

Bioconductor version: 3.0

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

Author: Valerie Obenchain [aut, cre], Martin Morgan [aut], Michael Lawrence [aut], Stephanie Gogarten [ctb]

Maintainer: Valerie Obenchain

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported source("//www.andersvercelli.com/biocLite.R") biocLite("VariantAnnotation")

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("VariantAnnotation")

PDF	R Script	filterVcf Overview
PDF	R Script	Introduction to VariantAnnotation
PDF		Reference Manual
Text		NEWS
Video		Reading VCF data

Details

biocViews	Annotation,DataImport,Genetics,SNP,Sequencing,Software
Version	1.12.9
In Bioconductor since	BioC 2.9 (R-2.14) (4.5 years)
License	Artistic-2.0
Depends	R (>= 2.8.0), methods,BiocGenerics(>= 0.7.7),GenomeInfoDb(>= 1.1.3),GenomicRanges(>= 1.17.40),Rsamtools(>= 1.17.26)
Imports	utils,DBI,zlibbioc,Biobase,S4Vectors(>= 0.2.3),IRanges(>= 2.0.1),XVector(>= 0.5.6),Biostrings(>= 2.33.5),AnnotationDbi(>= 1.27.9),BSgenome,rtracklayer(>= 1.25.16),GenomicFeatures(>= 1.17.13)
LinkingTo	S4Vectors,IRanges,XVector,Biostrings,Rsamtools
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,BiocStyle
SystemRequirements
Enhances
URL
Depends On Me	ampliQueso,cgdv17,CNVrd2,deepSNV,ensemblVEP,HTSeqGenie,PolyPhen.Hsapiens.dbSNP131,Rariant,SIFT.Hsapiens.dbSNP132,SIFT.Hsapiens.dbSNP137,SomaticSignatures,VariantTools
Imports Me	biovizBase,COSMIC.67,customProDB,FunciSNP,ggbio,GGtools,gmapR,MafDb.ALL.wgs.phase1.release.v3.20101123,MafDb.ALL.wgs.phase1.release.v3.20101123,MafDb.ESP6500SI.V2.SSA137.dbSNP138,MafDb.ESP6500SI.V2.SSA137.dbSNP138,R453Plus1Toolbox,SeqArray,VariantFiltering
Suggests Me	GenomicRanges,GWASTools,trio,vtpnet
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Package Source	VariantAnnotation_1.12.9.tar.gz
Windows Binary	VariantAnnotation_1.12.9.zip(32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	VariantAnnotation_1.12.9.tgz
Mac OS X 10.9 (Mavericks)	VariantAnnotation_1.12.9.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/VariantAnnotation/tree/release-3.0
Package Short Url	//www.andersvercelli.com/packages/VariantAnnotation/
Package Downloads Report	Download Stats