To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("qpgraph")

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

qpgraph

This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see qpgraph.

Reverse engineering of molecular regulatory networks with qp-graphs

Bioconductor version: 2.8

q-order partial correlation graphs, or qp-graphs for short, are undirected Gaussian graphical Markov models built from q-order partial correlations. They are useful for learning undirected graphical Gaussian Markov models from data sets where the number of random variables p exceeds the available sample size n as, for instance, in the case of microarray data where they can be employed to reverse engineer a molecular regulatory network.

Author: R. Castelo and A. Roverato

Maintainer: Robert Castelo <robert.castelo at upf.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("qpgraph")

Documentation

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

browseVignettes("qpgraph")

PDF		qpPCCdistbyTF.pdf
PDF		qpPreRecComparison.pdf
PDF		qpPreRecComparisonFullRecall.pdf
PDF		qpTRnet50pctpre.pdf
PDF		qpTxRegNet.pdf
PDF		Reference Manual

Details

biocViews	Bioinformatics, GeneExpression, GraphsAndNetworks, Microarray, Pathways, Software, Transcription
Version	1.8.2
In Bioconductor since	BioC 2.4 (R-2.9) (7 years)
License	GPL (>= 2)
Depends	methods
Imports	methods, annotate, Matrix, graph, Biobase, AnnotationDbi
LinkingTo
Suggests	Matrix, mvtnorm, graph, genefilter, Category, org.EcK12.eg.db, GOstats
SystemRequirements
Enhances	rlecuyer, snow, Rgraphviz
URL	http://functionalgenomics.upf.edu/qpgraph
Depends On Me
Imports Me
Suggests Me	GSVA
Build Report

Package Archives

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

Package Source	qpgraph_1.8.2.tar.gz
Windows Binary	qpgraph_1.8.2.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/qpgraph/tree/release-2.8
Package Short Url	http://bioconductor.org/packages/qpgraph/
Package Downloads Report	Download Stats