GRENITS

Gene Regulatory Network Inference Using Time Series

Bioconductor version: 2.9

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>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("GRENITS")

To cite this package in a publication, start R and enter:

    citation("GRENITS")

Documentation

PDF R Script GRENITS
PDF   Reference Manual
Text   NEWS

Details

biocViews Bioinformatics, TimeCourse, GraphsAndNetworks
Depends R (>= 2.12.0), Rcpp (>= 0.8.6), RcppArmadillo (>= 0.2.8), ggplot2
Imports graphics, grDevices, reshape, stats, utils
Suggests network
System Requirements
License GPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me
Version 1.6.0
Since Bioconductor 2.9 (R-2.14)

Package Downloads

Package Source GRENITS_1.6.0.tar.gz
Windows Binary GRENITS_1.6.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary GRENITS_1.6.0.tgz
Package Downloads Report Download Stats

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Fred Hutchinson Cancer Research Center