To install this package, start R and enter:

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

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

BiRewire

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

Bioconductor version: Release (3.1)

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 and directed signed networks (not bipartite) is also provided. Starting from version 1.9.7 a more precise bound (especially for small network) has been implemented.

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>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("BiRewire")

 

PDF R Script BiRewire
PDF   Reference Manual

Details

biocViews Network, Software
Version 2.0.0
In Bioconductor since BioC 2.13 (R-3.0)
License GPL-3
Depends igraph, slam
Imports
LinkingTo
Suggests RUnit, BiocGenerics
SystemRequirements
Enhances
URL http://www.ebi.ac.uk/~iorio/BiRewire
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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Package Source BiRewire_2.0.0.tar.gz
Windows Binary BiRewire_2.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) BiRewire_2.0.0.tgz
Mac OS X 10.9 (Mavericks) BiRewire_2.0.0.tgz
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