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: Release (3.0)

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, Sequencing, Software
Version 1.8.1
In Bioconductor since BioC 2.11 (R-2.15)
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
Suggests RUnit, LungCancerLines(>= 0.0.6), RBGL, graph
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_1.8.1.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Browse/checkout source (username/password: readonly)
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