This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

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 (3.18)

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 agrocampus-ouest.fr>

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

Installation

To install this package, start R (version "4.3") and enter:

if (!require("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

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

browseVignettes("GeneGeneInteR")
GeneGeneInteR Introduction PDF R Script
Pairwise interaction tests PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneticVariability, Genetics, GenomeWideAssociation, SNP, Software
Version 1.27.0
In Bioconductor since BioC 3.4 (R-3.3) (7 years)
License GPL (>= 2)
Depends R (>= 4.0)
Imports snpStats, mvtnorm, Rsamtools, igraph, kernlab, FactoMineR, IRanges, GenomicRanges, data.table, grDevices, graphics, stats, utils, methods
Linking To
Suggests
System Requirements
Enhances
URL
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package GeneGeneInteR_1.27.0.tar.gz
Windows Binary GeneGeneInteR_1.27.0.zip (64-bit only)
macOS Binary (x86_64) GeneGeneInteR_1.27.0.tgz
macOS Binary (arm64) GeneGeneInteR_1.27.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GeneGeneInteR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GeneGeneInteR
Bioc Package Browser https://code.bioconductor.org/browse/GeneGeneInteR/
Package Short Url https://bioconductor.org/packages/GeneGeneInteR/
Package Downloads Report Download Stats