Fast Algorithms for Computing the Tripartition-Based Distance Between Phylogenetic Networks

  • Nguyen Bao Nguyen
  • C. Thach Nguyen
  • Wing-Kin Sung
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3827)


Consider two phylogenetic networks N and N′ of size n. The tripartition-based distance finds the proportion of tripartitions which are not shared by N and N′. This distance is proposed by Moret et al (2004) and is a generalization of Robinson-Foulds distance, which is orginally used to compare two phylogenetic trees. This paper gives an O(min{kn log n, n log n + hn})-time algorithm to compute this distance, where h is the number of hybrid nodes in N and N′ while k is the maximum number of hybrid nodes among all biconnected components in N and N′. Note that k << h << n in a phylogenetic network. In addition, we propose algorithms for comparing galled-trees, which are an important, biological meaningful special case of phylogenetic network. We give an O(n)-time algorithm for comparing two galled-trees. We also give an O(n + kh)-time algorithm for comparing a galled-tree with another general network, where h and k are the number of hybrid nodes in the latter network and its biggest biconnected component respectively.


General Network Fast Algorithm Phylogenetic Network Split Node Biconnected Component 
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

  • Nguyen Bao Nguyen
    • 1
  • C. Thach Nguyen
    • 1
  • Wing-Kin Sung
    • 1
  1. 1.National University of SingaporeSingapore

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