Quickly compute all maximal cliques of a graph
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README.md

Quick Cliques: Quickly compute all maximal cliques in sparse graphs

license Build Status

The original intent of this software was to provide exact reproducibility of experimental results from two papers:

Listing All Maximal Cliques in Large Sparse Real-World Graphs in Near-Optimal Time,
D. Eppstein, M. Löffler, and D. Strash,
Journal of Experimental Algorithmics, 18 (3): 3.1, 2013,
doi:10.1145/2543629

and

Listing All Maximal Cliques in Large Sparse Real-World Graphs,
D. Eppstein and D. Strash
Proceedings of the 10th International Conference on Experimental Algorithms (SEA 2011), LNCS vol. 6630, pp. 403-414.
doi:10.1007/978-3-642-20662-7_31
arXiv:1103.0318

However, in the original implementation (written in C) was not designed to be integrated with other code. It has since been upgraded to C++11, is becoming more hardened, and has better support for integration into other software packages.

Want the exact code from the original experiments? See release v1.0.

###This package includes:

  • C++ code for four implementations for enumerating all maximal cliques of a graph
  • A small set of data used for testing (see ./data) [ For a larger set of data (too large for GitHub), you can download the following: http://www.ics.uci.edu/~dstrash/data.tar.gz ]
  • The test script used to build and run all algorithms on all data sets (./test.sh)

Please feel free to contact me with any questions!

Version

2.0beta

Building

$ git clone https://github.com/darrenstrash/quick-cliques.git
$ cd quick-cliques
$ make

Running

$ ./bin/qc --input-file=<input graph> --algorithm=<tomita|adjlist|degeneracy|hybrid>

or

$ ./test.sh

to run all algorithms on all data sets in ./data directory.

Printing Cliques

Cliques can pe printed in two formats:

  • One clique per line, as space separated integers.

    This is activated by the PRINT_CLIQUES_ONE_BY_ONE define in makefile

  • The recursion tree format used by Tomita et al. (2006). That is:

    • Print a number when search evaluates a new vertex
    • Print a c when a new maximal clique is found
    • Print a b when search backtracks.

    This is activated by the PRINT_CLIQUES_TOMITA_STYLE define in makefile

Graph Format

First, note that loops and directed edges are not supported, and could lead to errors.

Currently, two formats are supported:

  • The unweighted METIS format: Which consists of

    <# vertices> <# edges> 1

    followed by <# vertices> lines of space-separated vertices, where the i-th line consists of all neighbors of i. All vertices range from 1 to <# vertices>

  • A custom format: Which consists of

    <# vertices> 2*<# edges>

    followed by 2*<# edges> lines of comma-separated vertices of the form

    u,v

    where u and v are vertices represented by integers from 0 to <# vertices>-1. If u,v is in the list, then v,u must be in the list also.

There are plans to phase out the custom format and put in support for snap and dimacs files.

Copyright

Copyright (c) 2011-2016 Darren Strash.

License

This code is released under the GNU Public License (GPL) 3.0.

To read the GPL 3.0, read the file COPYING in this directory.

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/

Contact

Darren Strash (first name DOT last name AT gmail DOT com)