PartitionFinder 2: New Methods for Selecting Partitioned Models of Evolution for Molecular and Morphological Phylogenetic Analyses

Robert Lanfear; Paul B Frandsen; April M Wright; Tereza Senfeld; Brett Calcott

doi:10.1093/molbev/msw260

PartitionFinder 2: New Methods for Selecting Partitioned Models of Evolution for Molecular and Morphological Phylogenetic Analyses

Mol Biol Evol. 2017 Mar 1;34(3):772-773. doi: 10.1093/molbev/msw260.

Authors

Robert Lanfear^{1

2}, Paul B Frandsen³, April M Wright⁴, Tereza Senfeld², Brett Calcott⁵

Affiliations

¹ Research School of Biology, Australian National University, Canberra, ACT, Australia.
² Department of Biological Sciences, Macquarie University, Sydney, Australia.
³ Office of Research Information Services, Office of the Chief Information Officer, Smithsonian Institution, Washington, DC.
⁴ Ecology, Evolution and Organismal Biology, Iowa State University, Ames, IA.
⁵ Department of Philosophy, University of Sydney, Sydney, NSW, Australia.

PMID: 28013191
DOI: 10.1093/molbev/msw260

Abstract

PartitionFinder 2 is a program for automatically selecting best-fit partitioning schemes and models of evolution for phylogenetic analyses. PartitionFinder 2 is substantially faster and more efficient than version 1, and incorporates many new methods and features. These include the ability to analyze morphological datasets, new methods to analyze genome-scale datasets, new output formats to facilitate interoperability with downstream software, and many new models of molecular evolution. PartitionFinder 2 is freely available under an open source license and works on Windows, OSX, and Linux operating systems. It can be downloaded from www.robertlanfear.com/partitionfinder. The source code is available at https://github.com/brettc/partitionfinder.

Keywords: AIC; AICc; BIC; model selection; molecular evolution.; partitioning.

Publication types

Research Support, U.S. Gov't, Non-P.H.S.
Research Support, Non-U.S. Gov't

MeSH terms

Algorithms
Biological Evolution
Computer Simulation
Evolution, Molecular*
Genome
Models, Genetic*
Phylogeny
Sequence Analysis, DNA / methods*
Software