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Metrics for Phylogenetic Networks I: Generalizations of the Robinson-Foulds Metric
January-March 2009 (vol. 6 no. 1)
pp. 46-61
ASCII Text
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Gabriel Cardona, Mercè Llabrés, Francesc Rosselló, Gabriel Valiente, "Metrics for Phylogenetic Networks I: Generalizations of the Robinson-Foulds Metric," IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 6, no. 1, pp. 46-61, January-March, 2009.
 
 
BibTex
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@article{ 10.1109/TCBB.2008.70,
author = {Gabriel Cardona and Mercè Llabrés and Francesc Rosselló and Gabriel Valiente},
title = {Metrics for Phylogenetic Networks I: Generalizations of the Robinson-Foulds Metric},
journal ={IEEE/ACM Transactions on Computational Biology and Bioinformatics},
volume = {6},
number = {1},
issn = {1545-5963},
year = {2009},
pages = {46-61},
doi = {http://doi.ieeecomputersociety.org/10.1109/TCBB.2008.70},
publisher = {IEEE Computer Society},
address = {Los Alamitos, CA, USA},
}
 
 
RefWorks Procite/RefMan/Endnote
x 
 
TY - JOUR
JO - IEEE/ACM Transactions on Computational Biology and Bioinformatics
TI - Metrics for Phylogenetic Networks I: Generalizations of the Robinson-Foulds Metric
IS - 1
SN - 1545-5963
SP46
EP61
EPD - 46-61
A1 - Gabriel Cardona,
A1 - Mercè Llabrés,
A1 - Francesc Rosselló,
A1 - Gabriel Valiente,
PY - 2009
KW - Biology and genetics
KW - Graph algorithms
KW - Trees
VL - 6
JA - IEEE/ACM Transactions on Computational Biology and Bioinformatics
ER -
 
Gabriel Cardona, University of the Balearic Islands, Palma de Mallorca
Mercè Llabrés, University of the Balearic Islands, Palma de Mallorca
Francesc Rosselló, University of the Balearic Islands, Palma de Mallorca
Gabriel Valiente, Technical University of Catalonia, Barcelona
The assessment of phylogenetic network reconstruction methods requires the ability to compare phylogenetic networks. This is the first in a series of papers devoted to the analysis and comparison of metrics for tree-child time consistent phylogenetic networks on the same set of taxa. In this paper, we study three metrics that have already been introduced in the literature: the Robinson-Foulds distance, the tripartitions distance and the $\mu$-distance. They generalize to networks the classical Robinson-Foulds or partition distance for phylogenetic trees. We analyze the behavior of these metrics by studying their least and largest values and when they achieve them. As a by-product of this study, we obtain tight bounds on the size of a tree-child time consistent phylogenetic network.

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Index Terms:
Biology and genetics, Graph algorithms, Trees
Citation:
Gabriel Cardona, Mercè Llabrés, Francesc Rosselló, Gabriel Valiente, "Metrics for Phylogenetic Networks I: Generalizations of the Robinson-Foulds Metric," IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 6, no. 1, pp. 46-61, Jan.-March 2009, doi:10.1109/TCBB.2008.70
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