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 3.1 of Bioconductor; for the stable, up-to-date release version, see VariantTools.

Tools for Working with Genetic Variants

Bioconductor version: 3.1

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, Sequencing, Software
Version	1.10.0
In Bioconductor since	BioC 2.11 (R-2.15) (3.5 years)
License	Artistic-2.0
Depends	S4Vectors(>= 0.0.2), IRanges(>= 1.99.2), GenomicRanges(>= 1.17.7), VariantAnnotation(>= 1.11.16), methods
Imports	Rsamtools(>= 1.17.6), BiocGenerics, Biostrings, parallel, gmapR(>= 1.7.2), GenomicFeatures(>= 1.17.13), Matrix, rtracklayer(>= 1.25.3), BiocParallel, GenomeInfoDb, BSgenome, Biobase
LinkingTo
Suggests	RUnit, LungCancerLines(>= 0.0.6), RBGL, graph
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_1.10.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/VariantTools/tree/release-3.1
Package Short Url	http://bioconductor.org/packages/VariantTools/
Package Downloads Report	Download Stats

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