This program is free software; you can redistribute it and/or modify it
under the terms of version 3 of the GNU General Public License as published
by the Free Software Foundation. It should be shipped with MCL in the top
level directory as the file COPYING.
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
You should have received a copy of the GNU General Public License, version
2, along with this program in the file COPYING; if not, write to the Free
Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA
If you use MCL software in your scientific research, please cite it
appropriately as you would cite a journal or a book. This includes papers
published in regular or electronic journals, usage of MCL as a back-end to a
database that is accessible via a web interface, or inclusion of MCL in a
larger framework of software that is distributed for other people for
scientific use. Include one of the following citations:
Stijn van Dongen, Graph Clustering by Flow Simulation.
PhD thesis, University of Utrecht, May 2000.
( http://www.library.uu.nl/digiarchief/dip/diss/1895620/inhoud.htm )
Stijn van Dongen. A cluster algorithm for graphs. Technical Report
INS-R0010, National Research Institute for Mathematics and Computer
Science in the Netherlands, Amsterdam, May 2000.
( http://www.cwi.nl/ftp/CWIreports/INS/INS-R0010.ps.Z )
and proper attributions to mcl's home http://micans.org/mcl/
and its author, Stijn van Dongen.
The publications listed above can be retrieved from the preceding URL.
If you are using some wrapper around mcl such as the blast module or the
tribe module, you are asked to act likewise.
For biological applications, it is appropriate to cite, additionally,
the reference article for the first application of mcl to biological data:
Enright A.J., Van Dongen S., Ouzounis C.A.
An efficient algorithm for large-scale detection of protein families,
Nucleic Acids Research 30(7):1575-1584 (2002).
For copyright notices of source files, header files, documentation files,
and build files, consult the files themselves.
The largest part of MCL is held copyright by Stijn van Dongen.
The build part is copyright by Joost van Baal.
util/getpagesize.h is copyright by the Free Software Foundation.
The Ziggurat method in util/rand.h is copyright by Jochen Voss.