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Alignment and clustering of phylogenetic markers - implications for microbial diversity studies

James R White13, Saket Navlakha23, Niranjan Nagarajan4, Mohammad-Reza Ghodsi23, Carl Kingsford23 and Mihai Pop23*

Author Affiliations

1 Applied Mathematics and Scientific Computation Program, University of Maryland - College Park, College Park, MD, 20742, USA

2 Department of Computer Science, University of Maryland - College Park, College Park, MD, 20742, USA

3 Center for Bioinformatics and Computational Biology, University of Maryland - College Park, College Park, MD, 20742, USA

4 Computational and Mathematical Biology Program, Genome Institute of Singapore, 138672, Singapore

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BMC Bioinformatics 2010, 11:152  doi:10.1186/1471-2105-11-152

Published: 24 March 2010

Additional files

Additional file 1:

Variation of information distances of high-level taxonomic clusterings from the annotated species clustering. To give the reader some intuition about the VI distance metric, we computed VI distances between the annotated species-level clustering and other clusterings based on phylum, class, order, family, and genus annotations. This file contains a table of these reference distances.

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