Use this if you are using igraph from R
cluster_optimal {igraph}  R Documentation 
This function calculates the optimal community structure of a graph, by maximizing the modularity measure over all possible partitions.
cluster_optimal(graph, weights = NULL)
graph 
The input graph. Edge directions are ignored for directed graphs. 
weights 
The weights of the edges. It must be a positive numeric vector,

This function calculates the optimal community structure for a graph, in terms of maximal modularity score.
The calculation is done by transforming the modularity maximization into an integer programming problem, and then calling the GLPK library to solve that. Please the reference below for details.
Note that modularity optimization is an NPcomplete problem, and all known algorithms for it have exponential time complexity. This means that you probably don't want to run this function on larger graphs. Graphs with up to fifty vertices should be fine, graphs with a couple of hundred vertices might be possible.
cluster_optimal
returns a communities
object,
please see the communities
manual page for details.
## Zachary's karate club g < make_graph("Zachary") ## We put everything into a big 'try' block, in case ## igraph was compiled without GLPK support ## The calculation only takes a couple of seconds oc < cluster_optimal(g) ## Double check the result print(modularity(oc)) print(modularity(g, membership(oc))) ## Compare to the greedy optimizer fc < cluster_fast_greedy(g) print(modularity(fc))
Gabor Csardi csardi.gabor@gmail.com
Ulrik Brandes, Daniel Delling, Marco Gaertler, Robert Gorke, Martin Hoefer, Zoran Nikoloski, Dorothea Wagner: On Modularity Clustering, IEEE Transactions on Knowledge and Data Engineering 20(2):172188, 2008.
communities
for the documentation of the result,
modularity
. See also cluster_fast_greedy
for a
fast greedy optimizer.