Open source clustering software

MJL De Hoon, S Imoto, J Nolan, S Miyano - Bioinformatics, 2004 - academic.oup.com
MJL De Hoon, S Imoto, J Nolan, S Miyano
Bioinformatics, 2004academic.oup.com
We have implemented k-means clustering, hierarchical clustering and self-organizing maps
in a single multipurpose open-source library of C routines, callable from other C and C++
programs. Using this library, we have created an improved version of Michael Eisen's well-
known Cluster program for Windows, Mac OS X and Linux/Unix. In addition, we generated a
Python and a Perl interface to the C Clustering Library, thereby combining the flexibility of a
scripting language with the speed of C. Availability: The C Clustering Library and the …
Abstract
Summary: We have implemented k-means clustering, hierarchical clustering and self-organizing maps in a single multipurpose open-source library of C routines, callable from other C and C++ programs. Using this library, we have created an improved version of Michael Eisen's well-known Cluster program for Windows, Mac OS X and Linux/Unix. In addition, we generated a Python and a Perl interface to the C Clustering Library, thereby combining the flexibility of a scripting language with the speed of C.
Availability: The C Clustering Library and the corresponding Python C extension module Pycluster were released under the Python License, while the Perl module Algorithm::Cluster was released under the Artistic License. The GUI code Cluster 3.0 for Windows, Macintosh and Linux/Unix, as well as the corresponding command-line program, were released under the same license as the original Cluster code. The complete source code is available at http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster. Alternatively, Algorithm::Cluster can be downloaded from CPAN, while Pycluster is also available as part of the Biopython distribution.
Oxford University Press