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Updated: Apr 12, 2026

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

pez: phylogenetics for the environmental sciences.

William D Pearse¹, Marc W Cadotte², Jeannine Cavender-Bares³

¹Department of Ecology, Evolution, and Behavior, University of Minnesota, Saint Paul, MN, USA, Department of Biology, McGill University, Montréal, QC, Canada, Département des Sciences Biologiques, Université du Québec à Montréal, Succursale Centre-ville, Montréal, QC, Canada.

Bioinformatics (Oxford, England)

|May 8, 2015

Summary

This summary is machine-generated.

The pez R package provides tools for measuring, modeling, and simulating phylogenetic structure in ecological data. It offers novel implementations and integrates existing methods for enhanced phylogenetic analysis.

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Area of Science:

Ecology
Phylogenetics
Computational Biology

Background:

Phylogenetic structure is crucial for understanding ecological patterns.
Existing tools for phylogenetic analysis are fragmented.
A unified R package is needed to streamline these analyses.

Purpose of the Study:

To introduce pez, a comprehensive R package for phylogenetic structure analysis.
To provide novel implementations of key phylogenetic methods.
To integrate existing data structures and methods into a single package.

Main Methods:

Development of an R package named pez.
Implementation of methods for measurement, modeling, and simulation of phylogenetic structure.
Aggregation of existing data structures and methods.

Main Results:

pez offers the first R implementation for several phylogenetic methods.
The package provides a coherent framework for diverse phylogenetic analyses.
It facilitates the study of ecological data with phylogenetic structure.

Conclusions:

pez serves as a valuable, integrated resource for phylogenetic and ecological research.
The package simplifies complex phylogenetic analyses in R.
Active development and open-source nature encourage community contributions.