Program for finding the smallest enclosing parallelepiped [1]: parallelepiped.tar.gz

The Secator program [2] for clustering protein sequences or coordinates data with the Secator rule on the dendrogram of hierarchical clustering. Secator.tar.gz

The DPC program [3] for clustering protein sequences or coordinates data with the DPC rule (small density between two high densities) for selecting the number of clusters. DPC.tar.gz

The mmclustering program [2] for clustering using mixture models (using Gaussians, Dirichlet distribution [4], Fisher Von Mises, inverse stereographic projections of Gaussians [5] or Student distributions [2]. mmclustering.tar.gz

A program for sampling exactly nxm contingency tables [6]. ContingencyTable.tar


The MDF program for detecting movements between different protein conformations. MDF.tar


ANNOUNCE: I have splitted the former program called cluspack in smaller parts for maintenance facility reasons.

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And here some data for testing purpose: Iris.co, yeast3000.co

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• "[1]Minimal enclosing parallelepiped in 3D" Frédéric Vivien and Nicolas Wicker. Computational Geometry : Theory and Applications. 2004, Vol 29(3):177-190.
• "[2]Secator : A Program for Inferring Protein Subfamilies from Phylogenetic Trees" Nicolas Wicker, Guy Rene Perrin, Jean-Claude Thierry and Olivier Poch. Molecular Biology Evolution 18(8): 1435-1441, 2001.
• "[3]Density of points clustering, application to transcriptomic data analysis" Nicolas Wicker, Doulaye Dembele, Wolfgang Raffelsberger and Olivier Poch. Nucleic Acids Research 30(18): 3392-4000, 2002.
• "[4]A Maximum Likelihood Approximation Method for Dirichlet's Parameter Estimation." N. Wicker, J. Muller, R.K.R. Kalathur and O. Poch. Computational Statistics and Data Analysis 2008, 53(3):1315-1322.
• "[5]Model-based clustering on the unit sphere with an illustration using gene expression profiles." J.L. Dortet-Bernadet and N. Wicker. Biostatistics 2008, 9:66-80.
• "[6]Perfect sampling algorithm for small m x n contingency tables." N. Wicker. Statistics and Computing 2010, 20(1): 57-61.