GENIE3

DOI: 10.18129/B9.bioc.GENIE3    

GEne Network Inference with Ensemble of trees

Bioconductor version: Release (3.15)

This package implements the GENIE3 algorithm for inferring gene regulatory networks from expression data.

Author: Van Anh Huynh-Thu, Sara Aibar, Pierre Geurts

Maintainer: Van Anh Huynh-Thu <vahuynh at ulg.ac.be>

Citation (from within R, enter citation("GENIE3")):

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("GENIE3")

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("GENIE3")

 

HTML R Script GENIE3
PDF   Reference Manual
Text   NEWS

Details

biocViews DecisionTree, GeneExpression, GraphAndNetwork, Network, NetworkInference, Regression, Software, SystemsBiology
Version 1.18.0
In Bioconductor since BioC 3.6 (R-3.4) (5 years)
License GPL (>= 2)
Depends
Imports stats, reshape2, dplyr
LinkingTo
Suggests knitr, rmarkdown, foreach, doRNG, doParallel, Biobase, SummarizedExperiment, testthat, methods
SystemRequirements
Enhances
URL
Depends On Me
Imports Me BioNERO, MetNet
Suggests Me dnapath
Links To Me
Build Report  

Package Archives

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

Source Package GENIE3_1.18.0.tar.gz
Windows Binary GENIE3_1.18.0.zip (64-bit only)
macOS Binary (x86_64) GENIE3_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GENIE3
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GENIE3
Package Short Url https://bioconductor.org/packages/GENIE3/
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: