ddgraph
This package is for version 3.6 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see ddgraph.
Distinguish direct and indirect interactions with Graphical Modelling
Bioconductor version: 3.6
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("ddgraph")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ddgraph")
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("ddgraph")| Overview of the 'ddgraph' package | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GraphAndNetwork, Software |
| Version | 1.21.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (11.5 years) |
| License | GPL-3 |
| Depends | graph, methods, Rcpp |
| Imports | bnlearn (>= 2.8), gtools, pcalg, RColorBrewer, plotrix, MASS |
| System Requirements | |
| URL |
See More
| Suggests | Rgraphviz, e1071, ROCR, testthat |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ddgraph_1.21.0.tar.gz |
| Windows Binary | ddgraph_1.21.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | ddgraph_1.21.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ddgraph |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ddgraph |
| Package Short Url | https://bioconductor.org/packages/ddgraph/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |