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Pattern Identification in Biogeography

  • Ganeshkumar Ganapathy
  • Barbara Goodson
  • Robert Jansen
  • Vijaya Ramachandran
  • Tandy Warnow
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3692)

Abstract

We develop and study two distance metrics for area cladograms (leaf-labeled trees where many leaves can share the same label): the edge contract-and-refine metric and the MAAC distance metric. We demonstrate that in contrast to phylogenies, the contract-and-refine distance between two area cladograms is not identical to the character encoding distance, and the latter is not a metric. We present a polynomial time algorithm to compute the MAAC distance, based on a polynomial-time algorithm for computing the largest common pruned subtree of two area cladograms. We also describe a linear time algorithm to decide if two area cladograms are identical.

Keywords

Mast Problem Edit Distance Ecological Zone Maximum Agreement Leaf Label 
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

  • Ganeshkumar Ganapathy
    • 1
  • Barbara Goodson
    • 2
  • Robert Jansen
    • 2
  • Vijaya Ramachandran
    • 1
  • Tandy Warnow
    • 1
  1. 1.Department of Computer SciencesThe University of Texas at Austin
  2. 2.Section of Integrative Biology, School of Biological SciencesThe University of Texas at Austin

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