louvain 0.6.0

Louvain is a general algorithm for methods of community detection in large networks.

louvain-igraph
==============

This package implements the louvain algorithm in ``C++`` and exposes it to
``python``. It relies on ``(python-)igraph`` for it to function. Besides the
relative flexibility of the implementation, it also scales well, and can be run
on graphs of millions of nodes (as long as they can fit in memory). The core
function is ``find_partition`` which finds the optimal partition using the
louvain algorithm [1]_ for a number of different methods. The methods currently
implemented are (1) modularity [2]_, (2) Reichardt and Bornholdt's model using
the configuration null model and the Erdös-Rényi null model [3]_, (3) the
constant Potts model (CPM) [4]_, (4) Significance [5]_, and finally (5)
Surprise [6]_. In addition, it supports multiplex partition optimisation
allowing community detection on for example negative links [7]_ or multiple
time slices [8]_. It also provides some support for community detection on
bipartite graphs. See the documentation for more information.

.. image:: https://readthedocs.org/projects/louvain/badge/?version=develop
:target: http://louvain.readthedocs.io/en/latest/?badge=develop
:alt: Louvain documentation status (development version)

.. image:: https://travis-ci.org/vtraag/louvain-igraph.svg?branch=develop
:target: https://travis-ci.org/vtraag/louvain-igraph
:alt: Louvain build status (development version)

.. image:: https://zenodo.org/badge/31305324.svg
:target: https://zenodo.org/badge/latestdoi/31305324
:alt: DOI
Installation
------------

In short, for Unix: ``sudo pip install louvain``. For Windows: download the
binary installers.

For Unix like systems it is possible to install from source. For Windows this
is overly complicated, and you are recommended to use the binary installation
files. There are two things that are needed by this package: the igraph ``C``
core library and the python-igraph python package. For both, please see
http://igraph.org.

Make sure you have all necessary tools for compilation. In Ubuntu this can be
installed using ``sudo apt-get install build-essential``, please refer to the
documentation for your specific system. Make sure that not only ``gcc`` is
installed, but also ``g++``, as the louvain package is programmed in ``C++``.
Note that to compile ``igraph`` itself, you also need to install
``libxml2-dev``.

You can check if all went well by running a variety of tests using ``python
setup.py test``.

There are basically two installation modes, similar to the python-igraph
package itself (from which most of the setup.py comes).

1. No ``C`` core library is installed yet. The packages will be compiled and
linked statically to an automatically downloaded version of the ``C`` core
library of igraph.
2. A ``C`` core library is already installed. In this case, the package will
link dynamically to the already installed version. This is probably also the
version that is used by the igraph package, but you may want to double check
this.

In case the python-igraph package is already installed before, make sure that
both use the **same versions**.

The cleanest setup it to install and compile the ``C`` core library yourself
(make sure that the header files are also included, e.g. install also the
development package from igraph). Then both the python-igraph package, as well
as this package are compiled and (dynamically) linked to the same ``C`` core
library.

Troubleshooting
---------------

In case of any problems, best to start over with a clean environment. Make sure
you remove the python-igraph package completely, remove the ``C`` core library
and remove the louvain package. Then, do a complete reinstall starting from
``pip install louvain``. In case you want a dynamic library be sure to then
install the ``C`` core library from source before. Make sure you **install the
same versions**.

Usage
-----

There is no standalone version of louvain-igraph, and you will always need
python to access it. There are no plans for developing a standalone version or
R support. So, use python. Please refer to the documentation for more details
on function calls and parameters.

Just to get you started, below the essential parts.
To start, make sure to import the packages:

>>> import louvain
>>> import igraph as ig

We'll create a random graph for testing purposes:

>>> G = ig.Graph.Erdos_Renyi(100, 0.1);

For simply finding a partition use:

>>> part = louvain.find_partition(G, louvain.ModularityVertexPartition);

Contribute
----------

Source code: https://github.com/vtraag/louvain-igraph

Issue tracking: https://github.com/vtraag/louvain-igraph/issues

See the documentation on `Implementation` for more details on how to
contribute new methods.

References
----------

Please cite the references appropriately in case they are used.

.. [1] Blondel, V. D., Guillaume, J.-L., Lambiotte, R., & Lefebvre, E. (2008).
Fast unfolding of communities in large networks. Journal of Statistical
Mechanics: Theory and Experiment, 10008(10), 6.
`10.1088/1742-5468/2008/10/P10008 <http://doi.org/10.1088/1742-5468/2008/10/P10008>`_

.. [2] Newman, M. E. J., & Girvan, M. (2004). Finding and evaluating community
structure in networks. Physical Review E, 69(2), 026113.
`10.1103/PhysRevE.69.026113 <http://doi.org/10.1103/PhysRevE.69.026113>`_

.. [3] Reichardt, J., & Bornholdt, S. (2006). Statistical mechanics of
community detection. Physical Review E, 74(1), 016110.
`10.1103/PhysRevE.74.016110 <http://doi.org/10.1103/PhysRevE.74.016110>`_

.. [4] Traag, V. A., Van Dooren, P., & Nesterov, Y. (2011). Narrow scope for
resolution-limit-free community detection. Physical Review E, 84(1),
016114. `10.1103/PhysRevE.84.016114
<http://doi.org/10.1103/PhysRevE.84.016114>`_

.. [5] Traag, V. A., Krings, G., & Van Dooren, P. (2013). Significant scales in
community structure. Scientific Reports, 3, 2930. `10.1038/srep02930
<http://doi.org/10.1038/srep02930>`_

.. [6] Traag, V. A., Aldecoa, R., & Delvenne, J.-C. (2015). Detecting
communities using asymptotical surprise. Physical Review E, 92(2),
022816. `10.1103/PhysRevE.92.022816
<http://doi.org/10.1103/PhysRevE.92.022816>`_

.. [7] Traag, V. A., & Bruggeman, J. (2009). Community detection in networks
with positive and negative links. Physical Review E, 80(3), 036115.
`10.1103/PhysRevE.80.036115
<http://doi.org/10.1103/PhysRevE.80.036115>`_

.. [8] Mucha, P. J., Richardson, T., Macon, K., Porter, M. A., & Onnela, J.-P.
(2010). Community structure in time-dependent, multiscale, and multiplex
networks. Science, 328(5980), 876–8. `10.1126/science.1184819
<http://doi.org/10.1126/science.1184819>`_

Licence
-------

Copyright (C) 2016 V.A. Traag

This program is free software: you can redistribute it and/or modify it under
the terms of the GNU General Public License as published by the Free Software
Foundation, either version 3 of the License, or (at your option) any later
version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY
WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with
this program. If not, see http://www.gnu.org/licenses/.