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Multipolar Consensus for Phylogenetic Trees

Abstract : Collections of phylogenetic trees are usually summarized using consensus methods. These methods build a single tree, supposed to be representative of the collection. However, in the case of heterogeneous collections of trees, the resulting consensus may be poorly resolved (strict consensus, majority-rule consensus...), or may perform arbitrary choices among mutually incompatible clades, or splits (greedy consensus). Here, we propose an alternative method, which we call the Multi-Polar Consensus (MPC). Its aim is to display all the splits having a support above a pre-defined threshold, in a minimum number of consensus trees, or poles. We show that the problem is equivalent to a graph coloring problem, and propose an implementation of the method. Finally, we apply the MPC to real datasets. Our results indicate that, typically, all the splits down to a weight of 10% can be displayed in no more than 4 trees. In addition, in some cases, biologically relevant secondary signals, that would not have been present in any of the classical consensus trees, are indeed captured by our method, indicating that the MPC provides a convenient exploratory method for phylogenetic analysis. The method was implemented in a package freely available at http://www.lirmm.fr/~cbonnard/MPC.html.
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https://hal-lirmm.ccsd.cnrs.fr/lirmm-00126475
Contributor : Vincent Berry <>
Submitted on : Thursday, January 25, 2007 - 10:27:05 AM
Last modification on : Tuesday, November 6, 2018 - 11:04:05 AM
Long-term archiving on: : Wednesday, April 7, 2010 - 2:30:43 AM

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Cécile Bonnard, Vincent Berry, Nicolas Lartillot. Multipolar Consensus for Phylogenetic Trees. Systematic Biology, Oxford University Press (OUP), 2006, 55 (5), pp.837-843. ⟨10.1080/10635150600969880⟩. ⟨lirmm-00126475⟩

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