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 (3.13)

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 <mathieu.emily at agrocampus-ouest.fr>, Nicolas Sounac <nsounac at agrocamspus-ouest.fr>, Florian Kroell <florian.kroell at agrocampus-ouest.fr>, Magalie Houee-Bigot <magalie.houee at agrocampus-ouest.fr>

Maintainer: Mathieu Emily <mathieu.emily at agrocampus-ouest.fr>

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

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("GeneGeneInteR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF   Reference Manual

Details

biocViews GeneticVariability, Genetics, GenomeWideAssociation, SNP, Software
Version 1.17.0
In Bioconductor since BioC 3.4 (R-3.3) (4 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports snpStats, mvtnorm, Rsamtools, igraph, kernlab, FactoMineR, IRanges, GenomicRanges, data.table, grDevices, graphics, stats, utils, methods, GGtools
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Build Report  

Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/GeneGeneInteR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GeneGeneInteR
Package Short Url https://bioconductor.org/packages/GeneGeneInteR/
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