# Model choice for phylogeographic inference using a large set of models

@article{Pelletier2014ModelCF, title={Model choice for phylogeographic inference using a large set of models}, author={Tara A. Pelletier and Bryan C. Carstens}, journal={Molecular Ecology}, year={2014}, volume={23} }

Model‐based analyses are common in phylogeographic inference because they parameterize processes such as population division, gene flow and expansion that are of interest to biologists. Approximate Bayesian computation is a model‐based approach that can be customized to any empirical system and used to calculate the relative posterior probability of several models, provided that suitable models can be identified for comparison. The question of how to identify suitable models is explored using…

## 52 Citations

### PHRAPL: Phylogeographic Inference Using Approximate Likelihoods

- BiologySystematic biology
- 2017

PHRAPL is a valuable new method for phylogeographic model selection and will be particularly useful as a tool to more extensively explore demographic model space than is typically done or to estimate parameters for complex models that are not readily implemented using current methods.

### Phylogeographic model selection leads to insight into the evolutionary history of four-eyed frogs

- BiologyProceedings of the National Academy of Sciences
- 2016

This work argues in favor of using an objective approach to phylogeographic inference that proceeds by calculating the probability of multiple demographic models given the data and the subsequent ranking of these models using information theory, and illustrates this approach by investigating the diversification of two sister species of four-eyed frogs of northeastern Brazil.

### Phylogeographic model selection leads to insight into the Q : 4 ; 5 ; 6 evolutionary history of four-eyed frogs

- Biology
- 2016

This work argues in favor of using an objective approach to phylogeographic inference that proceeds by calculating the probability of multiple demographic models given the data and the subsequent ranking of these models using information theory, and illustrates the diversification of two sister species of four-eyed frogs of northeastern Brazil using single nucleotide polymorphisms obtained via restriction-associated digest sequencing.

### Inferring past demographic changes from contemporary genetic data: A simulation‐based evaluation of the ABC methods implemented in diyabc

- BiologyMolecular ecology resources
- 2017

It is concluded that diyabc‐based assessments are not suited to capture a detailed demographic history, but might be efficient at capturing simple, major demographic changes.

### Demographic model selection using random forests and the site frequency spectrum

- Computer ScienceMolecular ecology
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The results demonstrate that binning is an effective strategy for the construction of a multidimensional site frequency spectrum (mSFS) and imply that the statistical power of RF when applied to demographic model selection is at least comparable to traditional ABC algorithms.

### Comparative phylogeographic inference with genome‐wide data from aggregated population pairs

- BiologyEvolution; international journal of organic evolution
- 2020

It is found that the lampreys and bird population pairs exhibited temporal synchrony in both co‐divergence and collective secondary contact times, yet an idiosyncratic pattern in secondary migration intensities, opening up new possibilities for comparative phylogeography and population genomic studies.

### Phylogeographic inference using Bayesian model comparison across a fragmented chorus frog species complex

- BiologyMolecular ecology
- 2015

This study implemented a Bayesian model comparison approach to investigate previous biogeographic hypotheses while simultaneously inferring the presence of genetic structure in a chorus frog species complex and demonstrates the utility of model‐based approaches for phylogeographic inference.

### Extending phylogeography to account for lineage fusion

- BiologyJournal of Biogeography
- 2019

It is suggested that the recent release from data limitation allows phylogeographers to expand the scope of inferences about long‐term population history, owing to the advent of next‐generation sequencing.

### Toward a paradigm shift in comparative phylogeography driven by trait-based hypotheses

- BiologyProceedings of the National Academy of Sciences
- 2016

It is advocated that it is time for a paradigm shift in comparative phylogeography, especially given the limited utility of the concordance criterion as genomic data provide ever-increasing levels of resolution.

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