pymotifcounter 1.0.1

A simple wrapper for graph motif counting algorithms

A unified Python interface to fast motif enumeration algorithms such as:

• mfinder

• fanmod

• NetMODE

• PGD

A typical usage example is as follows:

"""
Visualise the distribution of size-3 motifs.
"""

from pymotifcounter.concretecounters import PyMotifCounterMfinder
from matplotlib import pyplot as plt
from networkx import watts_strogatz_graph

if __name__ == "__main__":
    # Create an example network
    g = watts_strogatz_graph(100, 8, 0.2)
    # Create a motif counter based on mfinder
    motif_counter = PyMotifCounterMfinder()
    # Enumerate motifs using the selected counter
    g_mtf_count = motif_counter(g)
    # Visualise the distribution
    g_mtf_count.plot.bar("motif_id", "nreal")
    plt.tight_layout()
    plt.show()

Which would produce the following distribution:

Installation

• Latest release can be installed from pypi by > pip install pymotifcounter.

• Latest development version can be obtained by cloning this repository

• For more details please see the project’s documentation on readthedocs