PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment
Université de Montpellier · Université de Montréal · +4 more institutions
Abstract
Modeling across site variation of the substitution process is increasingly recognized as important for obtaining more accurate phylogenetic reconstructions. Both finite and infinite mixture models have been proposed and have been shown to significantly improve on classical single-matrix models. Compared with their finite counterparts, infinite mixtures have a greater expressivity. However, they are computationally more challenging. This has resulted in practical compromises in the design of infinite mixture models. In particular, a fast but simplified version of a Dirichlet process model over equilibrium frequency profiles implemented in PhyloBayes has often been used in recent phylogenomics studies, while…
Citation impact
- FWCI
- 68.69
- Percentile
- 100%
- References
- 35
Authors
4- NLNicolas LartillotCorresponding
Université de Montpellier, Université de Montréal, Agriculture and Agri-Food Canada, Centre National de la Recherche Scientifique, University of Ottawa, Laboratoire d'Informatique, de Robotique et de Microélectronique de Montpellier
- NRNicolas Rodrigue
Centre National de la Recherche Scientifique, University of Ottawa, Université de Montréal, Agriculture and Agri-Food Canada, Laboratoire d'Informatique, de Robotique et de Microélectronique de Montpellier, Université de Montpellier
- DSDaniel Stubbs
Université de Montréal, Centre National de la Recherche Scientifique, Université de Montpellier, University of Ottawa, Laboratoire d'Informatique, de Robotique et de Microélectronique de Montpellier, Agriculture and Agri-Food Canada
- JRJacques Richer
Laboratoire d'Informatique, de Robotique et de Microélectronique de Montpellier, Université de Montréal, Agriculture and Agri-Food Canada, Université de Montpellier, University of Ottawa, Centre National de la Recherche Scientifique
Topics & keywords
- Computer science
- Dirichlet process
- Phylogenomics
- Hierarchical Dirichlet process
- Dirichlet distribution
- Gibbs sampling
- Inference
- Representation (politics)
- Life in Land