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

RTN

Reconstruction of transcriptional networks and analysis of master regulators

Bioconductor version: 2.13

This package provides classes and methods for transcriptional network inference and analysis. Modulators of transcription factor activity are assessed by conditional mutual information, and master regulators are mapped to phenotypes using different strategies, e.g., gene set enrichment, shadow and synergy analyses.

Author: Mauro Castro, Xin Wang, Michael Fletcher, Florian Markowetz and Kerstin Meyer

Maintainer: Mauro Castro <mauro.a.castro at gmail.com>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("RTN")

 

PDF	R Script	Main vignette: reconstruction and analysis of transcriptional networks in R
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneExpression, GeneRegulation, GraphsAndNetworks, NetworkAnalysis, NetworkEnrichment, NetworkInference, Software
Version	1.0.0
In Bioconductor since	BioC 2.13 (R-3.0)
License	Artistic-2.0
Depends	R (>= 2.15), methods, igraph
Imports	minet, snow, limma, RedeR(>= 1.8.1)
Suggests	HTSanalyzeR, RUnit, BiocGenerics
System Requirements
URL	http://dx.doi.org/10.1038/ncomms3464
Depends On Me	Fletcher2013b
Imports Me
Suggests Me

Package Archives

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

Package Source	RTN_1.0.0.tar.gz
Windows Binary	RTN_1.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	RTN_1.0.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats