GRENITS

DOI: 10.18129/B9.bioc.GRENITS    

Gene Regulatory Network Inference Using Time Series

Bioconductor version: Release (3.13)

The package offers four network inference statistical models using Dynamic Bayesian Networks and Gibbs Variable Selection: a linear interaction model, two linear interaction models with added experimental noise (Gaussian and Student distributed) for the case where replicates are available and a non-linear interaction model.

Author: Edward Morrissey

Maintainer: Edward Morrissey <edward.morrissey at gmail.com>

Installation

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

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

BiocManager::install("GRENITS")

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("GRENITS")

 

PDF	R Script	GRENITS
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bayesian, GeneExpression, GeneRegulation, GraphAndNetwork, Network, NetworkInference, Software, TimeCourse
Version	1.44.0
In Bioconductor since	BioC 2.9 (R-2.14) (10 years)
License	GPL (>= 2)
Depends	R (>= 2.12.0), Rcpp (>= 0.8.6), RcppArmadillo (>= 0.2.8), ggplot2 (>= 0.9.0)
Imports	graphics, grDevices, reshape2, stats, utils
LinkingTo	Rcpp, RcppArmadillo
Suggests	network
SystemRequirements
Enhances
URL
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	GRENITS_1.44.0.tar.gz
Windows Binary	GRENITS_1.44.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra)	GRENITS_1.44.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GRENITS
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GRENITS
Package Short Url	https://bioconductor.org/packages/GRENITS/
Package Downloads Report	Download Stats