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arXiv · 1608.02709

Parameterized Algorithms for the Maximum Agreement Forest Problem on Multiple Rooted Multifurcating Trees

Feng Shi·Jianer Chen·Qilong Feng·Jianxin Wang
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Abstract

The Maximum Agreement Forest problem has been extensively studied in phylogenetics. Most previous work is on two binary phylogenetic trees. In this paper, we study a generalized version of the problem: the Maximum Agreement Forest problem on multiple rooted multifurcating phylogenetic trees, from the perspective of fixed-parameter algorithms. By taking advantage of a new branch-and-bound strategy, two parameterized algorithms, with running times $O(2.42^k m^3 n^4)$ and $O(2.74^k m^3 n^5)$, respectively, are presented for the hard version and the soft version of the problem, which correspond to two different biological meanings to the polytomies in multifurcating phylogenetic trees.

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Feng Shi, Jianer Chen, Qilong Feng, Jianxin Wang. 2016-08-09. Parameterized Algorithms for the Maximum Agreement Forest Problem on Multiple Rooted Multifurcating Trees. https://arxiv.org/abs/1608.02709

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