To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("VariantTools")

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

VariantTools

Tools for Working with Genetic Variants

Bioconductor version: 2.13

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:

source("http://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   Reference Manual
Text   NEWS

Details

biocViews GeneticVariability, Genetics, HighThroughputSequencing, Software
Version 1.4.5
In Bioconductor since BioC 2.11 (R-2.15)
License Artistic-2.0
Depends IRanges(>= 1.19.34), GenomicRanges(>= 1.13.43), VariantAnnotation(>= 1.7.35), methods
Imports IRanges, Rsamtools(>= 1.11.10), GenomicRanges, BiocGenerics, Biostrings, parallel, gmapR(>= 1.3.8), GenomicFeatures, VariantAnnotation, methods, Matrix, rtracklayer, BiocParallel
Suggests RUnit, LungCancerLines(>= 0.0.6), RBGL
System Requirements
URL
Depends On Me
Imports Me HTSeqGenie
Suggests Me

Package Archives

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

Package Source VariantTools_1.4.5.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)
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