BiRewire

High-performing routines for the randomization of a bipartite graph (or a binary event matrix) preserving degree distribution (or marginal totals).

Bioconductor version: Release (2.14)

Fast functions for bipartite network rewiring through N consecutive switching steps (See References) and for the computation of the minimal number of switching steps to be performed in order to maximise the dissimilarity with respect to the original network. Includes function for the analysis of the introduced randomness across the switching and several other routines to analyse the resulting networks and their natural projections. Extension to undirected networks (not bipartite) is also provided.

Author: Andrea Gobbi [aut], Davide Albanese [cbt], Francesco Iorio [cbt], Giuseppe Jurman [cbt], Julio Saez-Rodriguez [cbt] .

Maintainer: Andrea Gobbi <gobbi.andrea at mail.com>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("BiRewire")

Documentation

PDF R Script BiRewire
PDF   Reference Manual

Details

biocViews Network, Software
Version 1.4.0
In Bioconductor since BioC 2.13 (R-3.0)
License GPL-3
Depends igraph
Imports
Suggests RUnit, BiocGenerics
System Requirements
URL http://www.ebi.ac.uk/~iorio/BiRewire
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source BiRewire_1.4.0.tar.gz
Windows Binary BiRewire_1.4.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) BiRewire_1.4.0.tgz
Mac OS X 10.9 (Mavericks)
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