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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
ABSTRACT
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.