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Tools for Testing Gene-Gene Interaction at the Gene Level

Bioconductor version: Release (3.19)

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 [aut, cre], Nicolas Sounac [ctb], Florian Kroell [ctb], Magalie Houee-Bigot [aut]

Maintainer: Mathieu Emily <mathieu.emily at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


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


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

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


biocViews GeneticVariability, Genetics, GenomeWideAssociation, SNP, Software
Version 1.30.0
In Bioconductor since BioC 3.4 (R-3.3) (8 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports snpStats, mvtnorm, Rsamtools, igraph, kernlab, FactoMineR, IRanges, GenomicRanges, data.table, grDevices, graphics, stats, utils, methods
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Follow Installation instructions to use this package in your R session.

Source Package GeneGeneInteR_1.30.0.tar.gz
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macOS Binary (x86_64) GeneGeneInteR_1.30.0.tgz
macOS Binary (arm64) GeneGeneInteR_1.30.0.tgz
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Source Repository (Developer Access) git clone
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