TY - JOUR

T1 - A simple fixed parameter tractable algorithm for computing the hybridization number of two (not necessarily binary) trees

AU - Piovesan, Teresa

AU - Kelk, Steven

PY - 2013

Y1 - 2013

N2 - 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 (6(r)r!).poly(n), where n = vertical bar X vertical bar. 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.

AB - 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 (6(r)r!).poly(n), where n = vertical bar X vertical bar. 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.

U2 - 10.1109/TCBB.2012.134

DO - 10.1109/TCBB.2012.134

M3 - Article

VL - 10

SP - 18

EP - 25

JO - IEEE/ACM Transactions on Computational Biology and Bioinformatics

JF - IEEE/ACM Transactions on Computational Biology and Bioinformatics

SN - 1545-5963

IS - 1

ER -