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The Cartographer
A Duality Based 2-Approximation Algorithm for Maximum Agreement Forest
November 14, 2018 Β· Declared Dead Β· + Add venue
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Authors
Neil Olver, Frans Schalekamp, Suzanne van der Ster, Leen Stougie, Anke van Zuylen
arXiv ID
1811.05916
Category
cs.DS: Data Structures & Algorithms
Citations
0
Last Checked
5 months ago
Abstract
We give a 2-approximation algorithm for the Maximum Agreement Forest problem on two rooted binary trees. This NP-hard problem has been studied extensively in the past two decades, since it can be used to compute the rooted Subtree Prune-and-Regraft (rSPR) distance between two phylogenetic trees. Our algorithm is combinatorial and its running time is quadratic in the input size. To prove the approximation guarantee, we construct a feasible dual solution for a novel linear programming formulation. In addition, we show this linear program is stronger than previously known formulations, and we give a compact formulation, showing that it can be solved in polynomial time
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