Software

TreeSOM tool set
C++ source code and Linux i586 binaries in a tar-gz archive. Compiles cleanly under Linux with gcc 3.3.4. Newer gcc versions may complain due to stricter C++ implementations. Compiles under Windows too, but adjustments may be necessary, depending on your compiler and libraries. However, once compiled, it runs in a DOS-box without problems. Please see Readme and the manual (PDF, 586KB) for further details.

• ver. 2.8 source code, Linux binaries i586, February 11, 2006
• ver. 2.7 source code, Linux binaries i586, December 08, 2005
• ver. 2.6 source code, Linux binaries i586, October 09, 2005

Publications

E.V. Samsonova, P. Krause, T. Bäck, A.P. IJzerman (2006) Characteristic amino acid combinations in olfactory G protein-coupled receptors. Proteins, in press.

E.V. Samsonova, J.N. Kok, A.P. IJzerman (2006) TreeSOM: cluster analysis in the self-organizing map. Neural Networks, 19(6-7):935-949.

E.V. Samsonova, T. Bäck, J.N. Kok, A.P. IJzerman (2005) Reliable Hierarchical Clustering with the Self-Organizing Map (color PDF), in A. Fazel Famili, Joost N. Kok, José M. Peña, et al. (eds.), Advances in Intelligent Data Analysis VI: 6th International Symposium on Intelligent Data Analysis, Lecture Notes in Computer Science, vol. 3646, p. 385-396, Springer Verlag. Software here (top of page).

E.V. Samsonova, J.N. Kok, A.P. IJzerman (2005) TreeSOM: Cluster Analysis in the Self-Organizing Map (color PDF), 5th Workshop on Self-Organizing Maps (WSOM), pp. 429-438. Extended version with UPGMA trees that had to be deleted to satisfy space requirements. Software here (top of page).

E.V. Samsonova, T. Bäck, M.W. Beukers, A.P. IJzerman, J.N. Kok (2003) Combining and comparing cluster methods in a receptor database , Proceedings of the 5th International Conference on Intelligent Data Analysis (IDA), Lecture Notes in Computer Science, vol. 2810, pp. 341-351, Springer-Verlag.

E.V. Samsonova (2002) Helix: an artificial life system modeling DNA , Master's Thesis, Leiden University.