To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("ddgraph")

In most cases, you don't need to download the package archive at all.

ddgraph

 

Distinguish direct and indirect interactions with Graphical Modelling

Bioconductor version: Release (3.1)

Distinguish direct from indirect interactions in gene regulation and infer combinatorial code from highly correlated variables such as transcription factor binding profiles. The package implements the Neighbourhood Consistent PC algorithm (NCPC) and draws Direct Dependence Graphs to represent dependence structure around a target variable. The package also provides a unified interface to other Graphical Modelling (Bayesian Network) packages for distinguishing direct and indirect interactions.

Author: Robert Stojnic

Maintainer: Robert Stojnic <robert.stojnic at gmail.com>

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

Installation

To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("ddgraph")

Documentation

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

browseVignettes("ddgraph")

 

PDF R Script Overview of the 'ddgraph' package
PDF   Reference Manual
Text   NEWS

Details

biocViews GraphAndNetwork, Software
Version 1.12.0
In Bioconductor since BioC 2.11 (R-2.15) (3 years)
License GPL-3
Depends graph, methods, Rcpp
Imports bnlearn (>= 2.8), gtools, pcalg, RColorBrewer, plotrix, MASS
LinkingTo Rcpp
Suggests Rgraphviz, e1071, ROCR, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source ddgraph_1.12.0.tar.gz
Windows Binary ddgraph_1.12.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) ddgraph_1.12.0.tgz
Mac OS X 10.9 (Mavericks) ddgraph_1.12.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/ddgraph/tree/release-3.1
Package Short Url http://bioconductor.org/packages/ddgraph/
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:

Fred Hutchinson Cancer Research Center