network.modules: Determine modules for network

In dna: Differential Network Analysis

Description

Determine the modular structure for a network.

Usage

network.modules(s,m,epsilon,plot=FALSE,interactive=FALSE,...)

Arguments

s	scores for a network.
m	minimum cluster size parameter.
epsilon	threshold parameter.
plot	indicates whether to create a graph for the network using the tkplot function in the igraph package.
interactive	indicates whether any plotted graphs should be interactive.
...	additional arguments passed to the tkplot function in the igraph package.

Value

modules

an object of S4-class "modules" for the network

Author(s)

The authors are Ryan Gill, Somnath Datta, and Susmita Datta. The software is maintained by Ryan Gill [e-mail].

References

Gill, R., Datta, S., and Datta, S. (2010) A statistical framework for differential network analysis from microarray data. BMC Bioinformatics, 11, 95.

Examples

# artificial example to show how to obtain modules from a matrix of
# connectivity scores
set.seed(26)
s=matrix(runif(100,-1,1),10,10);diag(s)=1;s=round((s+t(s))/2,1)
the.modules=network.modules(s,m=3,epsilon=.7)
the.modules

dna documentation built on July 8, 2020, 7:26 p.m.