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Bioinformatics. 2014 Mar 15;30(6):896-8. doi: 10.1093/bioinformatics/btt626. Epub 2013 Oct 31.

pyGCluster, a novel hierarchical clustering approach.

Author information

1
Institute of Plant Biology and Biotechnology, Department of Biology, University of Muenster, M√ľnster 48143, Germany.

Abstract

SUMMARY:

pyGCluster is a clustering algorithm focusing on noise injection for subsequent cluster validation. The reproducibility of a large amount of clusters obtained with agglomerative hierarchical clustering is assessed. Furthermore, a multitude of different distance-linkage combinations are evaluated. Finally, highly reproducible clusters are meta-clustered into communities. Graphical illustration of the results as node and expression maps is implemented.

AVAILABILITY AND IMPLEMENTATION:

pyGCluster requires Python 2.7, it is freely available at http://pyGCluster.github.io and published under MIT license. Dependencies are NumPy, SciPy and optionally fastcluster and rpy2.

CONTACT:

christan@fufezan.net

SUPPLEMENTARY INFORMATION:

Supplementary data is available at Bioinformatics online and at http://pyGCluster.github.io.

PMID:
24177716
DOI:
10.1093/bioinformatics/btt626
[Indexed for MEDLINE]

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