To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("GeneGeneInteR")

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

GeneGeneInteR

DOI: 10.18129/B9.bioc.GeneGeneInteR    

This is the development version of GeneGeneInteR; for the stable release version, see GeneGeneInteR.

Tools for Testing Gene-Gene Interaction at the Gene Level

Bioconductor version: Development (3.6)

The aim of this package is to propose several methods for testing gene-gene interaction in case-control association studies. Such a test can be done by aggregating SNP-SNP interaction tests performed at the SNP level (SSI) or by using gene-gene multidimensionnal methods (GGI) methods. The package also proposes tools for a graphic display of the results.

Author: Mathieu Emily, Nicolas Sounac, Florian Kroell, Magalie Houee-Bigot

Maintainer: Mathieu Emily <mathieu.emily at agrocampus-ouest.fr>, Magalie Houee-Bigot <magalie.houee at agrocampus-ouest.fr>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("GeneGeneInteR")

Documentation

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

browseVignettes("GeneGeneInteR")

 

PDF R Script GeneGeneInteR Introduction
PDF R Script Pairwise interaction tests
PDF   Reference Manual
Text   NEWS

Details

biocViews GeneticVariability, Genetics, GenomeWideAssociation, SNP, Software
Version 1.3.0
In Bioconductor since BioC 3.4 (R-3.3) (1 year)
License GPL (>= 2)
Depends R (>= 3.3)
Imports snpStats, mvtnorm, GGtools, Rsamtools, igraph, kernlab, FactoMineR, plspm, IRanges, GenomicRanges, data.table, rioja, grDevices, graphics, stats, utils
LinkingTo
Suggests
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.

Source Package GeneGeneInteR_1.3.0.tar.gz
Windows Binary GeneGeneInteR_1.3.0.zip
Mac OS X 10.11 (El Capitan) GeneGeneInteR_1.3.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GeneGeneInteR
Package Short Url http://bioconductor.org/packages/GeneGeneInteR/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: