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

Tools for Working with Genetic Variants

Bioconductor version: 2.11

Tools for 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")):

Installation

To install this package, start R and enter:

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

Documentation

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 SNVsOmuC.pdf
PDF Reference Manual
Text NEWS

Details

biocViews GeneticVariability, Genetics, HighThroughputSequencing, Software
Version 1.0.1
In Bioconductor since BioC 2.11 (R-2.15) (3.5 years)
License Artistic-2.0
Depends IRanges(>= 1.15.44), GenomicRanges(>= 1.9.52), VariantAnnotation(>= 1.3.20), methods
Imports IRanges, Rsamtools(>= 1.9.31), GenomicRanges, BiocGenerics, Biostrings, parallel, gmapR(>= 0.99.28), GenomicFeatures, VariantAnnotation, methods
LinkingTo
Suggests RUnit, LungCancerLines(>= 0.0.6)
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source VariantTools_1.0.1.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-2.11
Package Short Url http://bioconductor.org/packages/VariantTools/
Package Downloads Report Download Stats

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