modularity#
- modularity(G, communities, weight='weight', resolution=1)[source]#
Returns the modularity of the given partition of the graph.
Modularity is defined in [1] as
\[Q = \frac{1}{2m} \sum_{ij} \left( A_{ij} - \gamma\frac{k_ik_j}{2m}\right) \delta(c_i,c_j)\]where \(m\) is the number of edges, \(A\) is the adjacency matrix of
G
, \(k_i\) is the degree of \(i\), \(\gamma\) is the resolution parameter, and \(\delta(c_i, c_j)\) is 1 if \(i\) and \(j\) are in the same community else 0.According to [2] (and verified by some algebra) this can be reduced to
\[Q = \sum_{c=1}^{n} \left[ \frac{L_c}{m} - \gamma\left( \frac{k_c}{2m} \right) ^2 \right]\]where the sum iterates over all communities \(c\), \(m\) is the number of edges, \(L_c\) is the number of intra-community links for community \(c\), \(k_c\) is the sum of degrees of the nodes in community \(c\), and \(\gamma\) is the resolution parameter.
The resolution parameter sets an arbitrary tradeoff between intra-group edges and inter-group edges. More complex grouping patterns can be discovered by analyzing the same network with multiple values of gamma and then combining the results [3]. That said, it is very common to simply use gamma=1. More on the choice of gamma is in [4].
The second formula is the one actually used in calculation of the modularity. For directed graphs the second formula replaces \(k_c\) with \(k^{in}_c k^{out}_c\).
- Parameters:
- GNetworkX Graph
- communitieslist or iterable of set of nodes
These node sets must represent a partition of G’s nodes.
- weightstring or None, optional (default=”weight”)
The edge attribute that holds the numerical value used as a weight. If None or an edge does not have that attribute, then that edge has weight 1.
- resolutionfloat (default=1)
If resolution is less than 1, modularity favors larger communities. Greater than 1 favors smaller communities.
- Returns:
- Qfloat
The modularity of the paritition.
- Raises:
- NotAPartition
If
communities
is not a partition of the nodes ofG
.
References
[1]M. E. J. Newman “Networks: An Introduction”, page 224. Oxford University Press, 2011.
[2]Clauset, Aaron, Mark EJ Newman, and Cristopher Moore. “Finding community structure in very large networks.” Phys. Rev. E 70.6 (2004). <https://arxiv.org/abs/cond-mat/0408187>
[3]Reichardt and Bornholdt “Statistical Mechanics of Community Detection” Phys. Rev. E 74, 016110, 2006. https://doi.org/10.1103/PhysRevE.74.016110
[4]M. E. J. Newman, “Equivalence between modularity optimization and maximum likelihood methods for community detection” Phys. Rev. E 94, 052315, 2016. https://doi.org/10.1103/PhysRevE.94.052315
Examples
>>> import networkx.algorithms.community as nx_comm >>> G = nx.barbell_graph(3, 0) >>> nx_comm.modularity(G, [{0, 1, 2}, {3, 4, 5}]) 0.35714285714285715 >>> nx_comm.modularity(G, nx_comm.label_propagation_communities(G)) 0.35714285714285715