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Phylogenies without Branch Bounds: Contracting the Short, Pruning the Deep

Extended Abstract
  • Constantinos Daskalakis
  • Elchanan Mossel
  • Sebastien Roch
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5541)

Abstract

We introduce a new phylogenetic reconstruction algorithm which, unlike most previous rigorous inference techniques, does not rely on assumptions regarding the branch lengths or the depth of the tree. The algorithm returns a forest which is guaranteed to contain all edges that are: 1) sufficiently long and 2) sufficiently close to the leaves. How much of the true tree is recovered depends on the sequence length provided. The algorithm is distance-based and runs in polynomial time.

Keywords

Polynomial Time Branch Length Internal Vertex Tree Depth Short Edge 
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 2009

Authors and Affiliations

  • Constantinos Daskalakis
    • 1
  • Elchanan Mossel
    • 2
  • Sebastien Roch
    • 1
  1. 1.Microsoft ResearchUSA
  2. 2.UC Berkeley and Weizman InstituteUSA

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