A Survey of Metrics Measuring Difference for Rooted Phylogenetic Trees

Author(s): Juan Wang, Xinyue Qi, Bo Cui, Maozu Guo*

Journal Name: Current Bioinformatics

Volume 15 , Issue 7 , 2020


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Graphical Abstract:


Abstract:

Background: The evolutionary history of organisms can be described by phylogenetic trees. We need to compare the topologies of rooted phylogenetic trees when researching the evolution of a given set of species.

Objective: Up to now, there are several metrics measuring the dissimilarity between rooted phylogenetic trees, and those metrics are defined by different ways.

Methods: This paper analyzes those metrics from their definitions and the distance values computed by those metrics by terms of experiments.

Results: The results of experiments show that the distances calculated by the cluster metric, the partition metric, and the equivalent metric have a good Gaussian fitting, and the equivalent metric can describe the difference between trees better than the others.

Conclusion: Moreover, it presents a tool called as CDRPT (Computing Distance for Rooted Phylogenetic Trees). CDRPT is a web server to calculate the distance for trees by an on-line way. CDRPT can also be off-line used by means of installing application packages for the Windows system. It greatly facilitates the use of researchers. The home page of CDRPT is http://bioinformatics.imu.edu.cn/tree/.

Keywords: Phylogenetic tree, metric, CDRPT, distance, evolution, topologies.

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Article Details

VOLUME: 15
ISSUE: 7
Year: 2020
Published on: 17 October, 2019
Page: [697 - 702]
Pages: 6
DOI: 10.2174/1574893614666191017130217
Price: $65

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