[Biopython-dev] Bio.Cluster

Michiel Jan Laurens de Hoon mdehoon at ims.u-tokyo.ac.jp
Thu Jun 12 00:44:38 EDT 2003

Dear biopython developers,

I have added Bio.Cluster to the Biopython CVS. Bio.Cluster contains 
clustering techniques for gene expression data (hierarchical, k-means, 
and SOMs); most routines are written in C with a Python wrapper. This 
package also exists separately as Pycluster.

The Python and C source code is in Bio/Cluster; I have also added 
Bio.Cluster to setup.py.

In case you want to try this package, there is a manual at
(replace "from Pycluster import *" by "from Bio.Cluster import *") and a 
sample data set at
Please let me know if you find any problems with this package.


Michiel de Hoon, Assistant Professor
University of Tokyo, Institute of Medical Science
Human Genome Center
4-6-1 Shirokane-dai, Minato-ku
Tokyo 108-8639

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