期刊
JOURNAL OF COMPUTER AND SYSTEM SCIENCES
卷 140, 期 -, 页码 -出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.jcss.2023.103480
关键词
Phylogenetic network; Graph orientation; Graph algorithm; Fixed-parameter tractability; Polynomial-time algorithm; Characterization; Computational biology; Phylogenetics
This paper investigates the relationship between undirected and directed phylogenetic networks, and provides corresponding algorithms. The study reveals that the directed phylogenetic network is unique under specific conditions. Additionally, an algorithm for directing undirected binary networks is described, applicable to certain classes of directed phylogenetic networks.
This paper studies the relationship between undirected (unrooted) and directed (rooted) phylogenetic networks. We describe a polynomial-time algorithm for deciding whether an undirected nonbinary phylogenetic network, given the locations of the root and reticulation vertices, can be oriented as a directed nonbinary phylogenetic network. Moreover, we characterize when this is possible and show that, in such instances, the resulting directed nonbinary phylogenetic network is unique. In addition, without being given the location of the root and the reticulation vertices, we describe an algorithm for deciding whether an undirected binary phylogenetic network N can be oriented as a directed binary phylogenetic network of a certain class. The algorithm is fixed-parameter tractable (FPT) when the parameter is the level of N and is applicable to classes of directed phylogenetic networks that satisfy certain conditions. As an example, we show that the well-studied class of binary tree-child networks satisfies these conditions.(c) 2023 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license (http://creativecommons .org /licenses /by /4 .0/).
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