Computer Methods and Programs in Biomedicine
Computer Methods and Programs in Biomedicine
IWANN '09 Proceedings of the 10th International Work-Conference on Artificial Neural Networks: Part I: Bio-Inspired Systems: Computational and Ambient Intelligence
Learning, detecting, understanding, and predicting concept changes
IJCNN'09 Proceedings of the 2009 international joint conference on Neural Networks
International Journal of Data Mining and Bioinformatics
Computational Biology and Chemistry
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Summary: Pvclust is an add-on package for a statistical software R to assess the uncertainty in hierarchical cluster analysis. Pvclust can be used easily for general statistical problems, such as DNA microarray analysis, to perform the bootstrap analysis of clustering, which has been popular in phylogenetic analysis. Pvclust calculates probability values (p-values) for each cluster using bootstrap resampling techniques. Two types of p-values are available: approximately unbiased (AU) p-value and bootstrap probability (BP) value. Multiscale bootstrap resampling is used for the calculation of AU p-value, which has superiority in bias over BP value calculated by the ordinary bootstrap resampling. In addition the computation time can be enormously decreased with parallel computing option. Availability: The program is freely distributed under GNU General Public License (GPL) and can directly be installed from CRAN (http://cran.r-project.org/), the official R package archive. The instruction and program source code are available at http://www.is.titech.ac.jp/~shimo/prog/pvclust Contact: ryota.suzuki@is.titech.ac.jp