On the Computational Complexity of the Rooted Subtree Prune and Regraft Distance
نویسندگان
چکیده
منابع مشابه
On the Computational Complexity of the Rooted Subtree Prune and Regraft Distance
The graph-theoretic operation of rooted subtree prune and regraft is increasingly being used as a tool for understanding and modelling reticulation events in evolutionary biology. In this paper, we show that computing the rooted subtree prune and regraft distance between two rooted binary phylogenetic trees on the same label set is NP-hard. This resolves a longstanding open problem. Furthermore...
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Supertree methods reconcile a set of phylogenetic trees into a single structure that is often interpreted as a branching history of species. A key challenge is combining conflicting evolutionary histories that are due to artifacts of phylogenetic reconstruction and phenomena such as lateral gene transfer (LGT). Many supertree approaches use optimality criteria that do not reflect underlying pro...
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The subtree prune-and-regraft (SPR) distance metric is a fundamental way of comparing evolutionary trees. It has wide-ranging applications, such as to study lateral genetic transfer, viral recombination, and Markov chain Monte Carlo phylogenetic inference. Although the rooted version of SPR distance can be computed relatively efficiently between rooted trees using fixed-parameter-tractable algo...
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The subtree prune-and-regraft (SPR) distance metric is a fundamen-tal way of comparing evolutionary trees. It has wide-ranging applications,such as to study lateral genetic transfer, viral recombination, and Markovchain Monte Carlo phylogenetic inference. Although the rooted versionof SPR distance can be computed relatively efficiently between rootedtrees using fixed-paramet...
متن کاملRicci-Ollivier Curvature of the Rooted Phylogenetic Subtree-Prune-Regraft Graph
Statistical phylogenetic inference methods use tree rearrangement operations to perform either hillclimbing local search or Markov chain Monte Carlo across tree topologies. The canonical class of such moves are the subtree-prune-regraft (SPR) moves that remove a subtree and reattach it somewhere else via the cut edge of the subtree. Phylogenetic trees and such moves naturally form the vertices ...
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ژورنال
عنوان ژورنال: Annals of Combinatorics
سال: 2005
ISSN: 0218-0006,0219-3094
DOI: 10.1007/s00026-004-0229-z