To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("VariantTools")

In most cases, you don't need to download the package archive at all.

VariantTools

This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, see VariantTools.

Tools for Working with Genetic Variants

Bioconductor version: 2.12

Tools for detecting, filtering, calling, comparing and plotting variants.

Author: Michael Lawrence, Jeremiah Degenhardt, Robert Gentleman

Maintainer: Michael Lawrence <michafla at gene.com>

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

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("VariantTools")

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("VariantTools")

PDF	R Script	Introduction to VariantTools
PDF		Reference Manual
Text		NEWS

biocViews	GeneticVariability, Genetics, HighThroughputSequencing, Software
Version	1.2.2
In Bioconductor since	BioC 2.11 (R-2.15) (3.5 years)
License	Artistic-2.0
Depends	IRanges(>= 1.17.10), GenomicRanges(>= 1.9.52), VariantAnnotation(>= 1.3.20), methods
Imports	IRanges, Rsamtools(>= 1.11.10), GenomicRanges, BiocGenerics, Biostrings, parallel, gmapR(>= 1.1.16), GenomicFeatures, VariantAnnotation, methods, RBGL, graph, Matrix, rtracklayer
LinkingTo
Suggests	RUnit, LungCancerLines(>= 0.0.6)
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	HTSeqGenie
Suggests Me
Build Report

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

Package Source	VariantTools_1.2.2.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/VariantTools/tree/release-2.12
Package Short Url	http://bioconductor.org/packages/VariantTools/
Package Downloads Report	Download Stats

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