def findCommunities(G):
"""
Partition network with the Infomap algorithm.
Annotates nodes with 'community' id and return number of communities found.
"""
conf = infomap.init("--two-level");
# Input data
network = infomap.Network(conf);
# Output data
tree = infomap.HierarchicalNetwork(conf)
print "Building network..."
for e in G.edges_iter():
network.addLink(*e)
network.finalizeAndCheckNetwork(True, nx.number_of_nodes(G));
# Cluster network
infomap.run(network, tree);
codelength = tree.codelength()
print "Codelength:", codelength
communities = {}
for leaf in tree.leafIter():
communities[leaf.originalLeafIndex] = leaf.parentNode.parentIndex
nx.set_node_attributes(G, 'community', communities)
return tree.numTopModules()
def findCommunities(G):
"""
Partition network with the Infomap algorithm.
Annotates nodes with 'community' id and return number of communities found.
"""
conf = infomap.init("--two-level");
# Input data
network = infomap.Network(conf);
# Output data
tree = infomap.HierarchicalNetwork(conf)
print "Building network..."
for e in G.edges_iter():
network.addLink(*e)
network.finalizeAndCheckNetwork(True, nx.number_of_nodes(G));
# Cluster network
infomap.run(network, tree);
print "Found %d top modules with codelength: %f" % (tree.numTopModules(), tree.codelength())
communities = {}
clusterIndexLevel = 1 # 1, 2, ... or -1 for top, second, ... or lowest cluster level
for node in tree.leafIter(clusterIndexLevel):
communities[node.originalLeafIndex] = node.clusterIndex()
nx.set_node_attributes(G, 'community', communities)
return tree.numTopModules()
print "Creating network..." network = infomap.Network(conf) network.addLink(0, 1) network.addLink(0, 2) network.addLink(0, 3) network.addLink(1, 0) network.addLink(1, 2) network.addLink(2, 1) network.addLink(2, 0) network.addLink(3, 0) network.addLink(3, 4) network.addLink(3, 5) network.addLink(4, 3) network.addLink(4, 5) network.addLink(5, 4) network.addLink(5, 3) print "Num links:", network.numLinks() network.finalizeAndCheckNetwork() tree = infomap.HierarchicalNetwork(conf) infomap.run(network, tree) codelength = tree.codelength() print "Codelength:", codelength
