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Online Journal of Bioinformatics ©
Volume 7 (1): 15-21, 2006.
Clusterer: extendable java application for sequence grouping and cluster analyses.
Klepac-Ceraj V2 3 *, Ceraj I1 *, Polz MF2
1Information Services and Technology, 2Department of Civil and Environmental Engineering, Massachusets Institute of Technology (MIT), Cambridge, Massachusets, USA. 3Current address, Harvard Medical School, Department of Microbiology and Molecular Genetics, Massachusetts, USA. *Equally contributing authors
Klepac-Ceraj V, Ceraj I, Polz MF, Clusterer: extendable java application for sequence grouping and cluster analyses, Onl J Bioinform., 7 (1) : 15-21, 2006. A Java application with a graphical user interface which assigns nucleic acid and protein sequences to clusters for each particular sequence divergence level, is described. The program provides graphical and tabular outputs of composition of clustered data, distributions of cluster sizes and rarefaction curves for all divergence levels. A summary of all sequence clusters for all sequence divergence levels is presented in a single graph, providing an overview of how sequences compose the clusters at a particular divergence level. Clusterer is available on UNIX, MacOS and Windows operating systems and is under MIT license. There are precompiled binaries for available for Java WebStart and as an applet as well as sources.
Key-Words: Java, interface, cluster assignment.