variants

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, seevariants.

Annotating Genomic Variants

Bioconductor version: 3.8

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: Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("variants")

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

Documentation

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

browseVignettes("variants")

HTML

R Script

Annotating Genomic Variants

Details

biocViews	AnnotationWorkflow,ImmunoOncologyWorkflow,Workflow
Version	1.4.1
License	Artistic-2.0
Depends	R (>= 3.3.0),VariantAnnotation,cgdv17,org.Hs.eg.db,TxDb.Hsapiens.UCSC.hg19.knownGene,BSgenome.Hsapiens.UCSC.hg19,PolyPhen.Hsapiens.dbSNP131
Imports
LinkingTo
Suggests	knitr,rmarkdown,BiocStyle
SystemRequirements
Enhances
URL	//www.anjoumacpherson.com/help/workflows/variants/
Depends On Me
Imports Me
Suggests Me
Links To Me

Package Archives

Followbob 体育网址 instructions to use this package in your R session.

Source Package	variants_1.4.1.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
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	//www.anjoumacpherson.com/packages/variants/
Package Downloads Report	Download Stats