A simple fixed parameter tractable algorithm for computing the hybridization number of two (not necessarily binary) trees

Authors
  • T. Piovesan
  • S.M. Kelk
Publication date 2013
Journal IEEE/ACM Transactions on Computational Biology and Bioinformatics
Volume | Issue number 10 | 1
Pages (from-to) 18-25
Number of pages 8
Organisations
  • Interfacultary Research - Institute for Logic, Language and Computation (ILLC)
Abstract

Here, we present a new fixed parameter tractable algorithm to compute the hybridization number (r) of two rooted, not necessarily binary phylogenetic trees on taxon set (X) in time ((6r r) ยท poly(n)), where (n= |X|). The novelty of this approach is its use of terminals, which are maximal elements of a natural partial order on (X), and several insights from the softwired clusters literature. This yields a surprisingly simple and practical bounded-search algorithm and offers an alternative perspective on the underlying combinatorial structure of the hybridization number problem.

Document type Article
Language English
Published at
https://doi.org/10.1109/TCBB.2012.134 (Final published version)
Other links
Permalink to this page
Back