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A Fast Algorithmic Technique for Comparing Large Phylogenetic Trees

  • Gabriel Valiente
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3772)

Abstract

The comparison of rooted phylogenetic trees is essential to querying phylogenetic databases such as TreeBASE. Current comparison methods are based on either tree edit distances or common subtrees. However, a limitation of such methods is their inherent complexity. In this paper, a new distance over fully resolved phylogenetic trees, the transposition distance, is described which is based on a well-known bijection between perfect matchings and phylogenetic trees, and simple linear-time algorithms are presented for computing the new distance.

Keywords

Phylogenetic Tree Topological Restriction Common Taxon Matching Distance Matching Representation 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2005

Authors and Affiliations

  • Gabriel Valiente
    • 1
  1. 1.Department of SoftwareTechnical University of CataloniaBarcelona

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