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Bioconductor - BioNet

BioNet

This is the released version of BioNet; for the devel version, see BioNet.

Routines for the functional analysis of biological networks

Bioconductor version: Release (3.21)

This package provides functions for the integrated analysis of protein-protein interaction networks and the detection of functional modules. Different datasets can be integrated into the network by assigning p-values of statistical tests to the nodes of the network. E.g. p-values obtained from the differential expression of the genes from an Affymetrix array are assigned to the nodes of the network. By fitting a beta-uniform mixture model and calculating scores from the p-values, overall scores of network regions can be calculated and an integer linear programming algorithm identifies the maximum scoring subnetwork.

Author: Marcus Dittrich and Daniela Beisser

Maintainer: Marcus Dittrich <marcus.dittrich at biozentrum.uni-wuerzburg.de>

Citation (from within R, enter citation("BioNet")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("BioNet")

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("BioNet")

Details biocViews DataImport, DifferentialExpression, GeneExpression, GraphAndNetwork, Microarray, Network, NetworkEnrichment, Software Version 1.68.0 In Bioconductor since BioC 2.7 (R-2.12) (14.5 years) License GPL (>= 2) Depends R (>= 2.10.0), graph, RBGL Imports igraph (>= 1.0.1), AnnotationDbi, Biobase System Requirements URL http://bionet.bioapps.biozentrum.uni-wuerzburg.de/ See More Suggests rgl, impute, DLBCL, genefilter, xtable, ALL, limma, hgu95av2.db, XML Linking To Enhances Depends On Me Imports Me gatom, SMITE Suggests Me SANTA, mwcsr Links To Me Build Report Build Report Package Archives

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

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