GENIE3

DOI: 10.18129/B9.bioc.GENIE3  

GEne Network Inference with Ensemble of trees

Bioconductor version: Release (3.16)

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>

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	1.20.0
In Bioconductor since	BioC 3.6 (R-3.4) (5.5 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_1.20.0.tar.gz
Windows Binary	GENIE3_1.20.0.zip (64-bit only)
macOS Binary (x86_64)	GENIE3_1.20.0.tgz
macOS Binary (arm64)	GENIE3_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GENIE3
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GENIE3
Bioc Package Browser	https://code.bioconductor.org/browse/GENIE3/
Package Short Url	https://bioconductor.org/packages/GENIE3/
Package Downloads Report	Download Stats