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A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees
For each given pair of (rooted or unrooted) topological trees with the same number of leaves a strict upper bound is shown for the tree partition distance (also called symmetric difference metric and Robinson-Foulds distance)—in case of unrooted trees—and for the cluster distance (also called Robins...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6161905/ https://www.ncbi.nlm.nih.gov/pubmed/30265723 http://dx.doi.org/10.1371/journal.pone.0204907 |
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author | Middendorf, Martin Wieseke, Nicolas |
author_facet | Middendorf, Martin Wieseke, Nicolas |
author_sort | Middendorf, Martin |
collection | PubMed |
description | For each given pair of (rooted or unrooted) topological trees with the same number of leaves a strict upper bound is shown for the tree partition distance (also called symmetric difference metric and Robinson-Foulds distance)—in case of unrooted trees—and for the cluster distance (also called Robinson-Foulds distance)—in case of rooted trees—of corresponding phylogenetic trees. In particular, it is shown that there exist assignments of labels (e.g., species) to the leaves of both topological tree where each label is assigned to exactly one leaf in each tree such that: i) in the unrooted case, the tree partition distance between the corresponding phylogenetic trees equals the number of internal edges in both trees minus the number of nodes with degree 2 in both trees, ii) in the rooted case, the cluster distance between any two corresponding phylogenetic trees equals the number of internal edges in both trees minus the number of nodes with degree 2 in both trees, and iii) the values in (i) and (ii) are also the maximum values with respect to all possible assignments. The shown strict worst case bounds are needed as normalization factor to compute a normalized version of the respective tree partition metrics. |
format | Online Article Text |
id | pubmed-6161905 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-61619052018-10-19 A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees Middendorf, Martin Wieseke, Nicolas PLoS One Research Article For each given pair of (rooted or unrooted) topological trees with the same number of leaves a strict upper bound is shown for the tree partition distance (also called symmetric difference metric and Robinson-Foulds distance)—in case of unrooted trees—and for the cluster distance (also called Robinson-Foulds distance)—in case of rooted trees—of corresponding phylogenetic trees. In particular, it is shown that there exist assignments of labels (e.g., species) to the leaves of both topological tree where each label is assigned to exactly one leaf in each tree such that: i) in the unrooted case, the tree partition distance between the corresponding phylogenetic trees equals the number of internal edges in both trees minus the number of nodes with degree 2 in both trees, ii) in the rooted case, the cluster distance between any two corresponding phylogenetic trees equals the number of internal edges in both trees minus the number of nodes with degree 2 in both trees, and iii) the values in (i) and (ii) are also the maximum values with respect to all possible assignments. The shown strict worst case bounds are needed as normalization factor to compute a normalized version of the respective tree partition metrics. Public Library of Science 2018-09-28 /pmc/articles/PMC6161905/ /pubmed/30265723 http://dx.doi.org/10.1371/journal.pone.0204907 Text en © 2018 Middendorf, Wieseke http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Middendorf, Martin Wieseke, Nicolas A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
title | A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
title_full | A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
title_fullStr | A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
title_full_unstemmed | A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
title_short | A strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
title_sort | strict upper bound for the partition distance and the cluster distance of phylogenetic trees for each fixed pair of topological trees |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6161905/ https://www.ncbi.nlm.nih.gov/pubmed/30265723 http://dx.doi.org/10.1371/journal.pone.0204907 |
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