Software for Systematics and Evolution
@inproceedings{Daniel2016SoftwareFS, title={Software for Systematics and Evolution}, author={Daniel and L. and Ayres and Michael and P. and Cummings and G. Baele and Aaron and E. and Darling and Paul and •{\~o} and Lewis and David and SWOFFORD and John and HUELSENBECK and P. Lemey and A. Rambaut and Marc and A. and SUCHARD}, year={2016} }
—Programs for Bayesian inference of phylogeny currently implement a unique and fixed suite of models. Consequently, users of these software packages are simultaneously forced to use a number of programs for a given study, while also lacking the freedom to explore models that have not been implemented by the developers of those programs. We developed a new open-source software package, RevBayes, to address these problems. RevBayes is entirely based on probabilistic graphical models, a powerful… Expand
References
SHOWING 1-10 OF 237 REFERENCES
RevBayes: Bayesian Phylogenetic Inference Using Graphical Models and an Interactive Model-Specification Language
- Biology, Medicine
- Systematic biology
- 2016
- 282
- PDF
Probabilistic Graphical Model Representation in Phylogenetics
- Mathematics, Biology
- Systematic biology
- 2014
- 59
- PDF
BEAST: Bayesian evolutionary analysis by sampling trees
- Medicine, Biology
- BMC Evolutionary Biology
- 2007
- 10,686
- PDF
TESS: an R package for efficiently simulating phylogenetic trees and performing Bayesian inference of lineage diversification rates
- Computer Science, Medicine
- Bioinform.
- 2016
- 81
- PDF
BEAST 2: A Software Platform for Bayesian Evolutionary Analysis
- Computer Science, Medicine
- PLoS Comput. Biol.
- 2014
- 3,663
- PDF
MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space
- Mathematics, Computer Science
- Systematic biology
- 2012
- 12,682
- Highly Influential
- PDF
bModelTest: Bayesian phylogenetic site model averaging and model comparison
- Biology, Medicine
- BMC Evolutionary Biology
- 2017
- 263
- PDF
Bayesian phylogenetic model selection using reversible jump Markov chain Monte Carlo.
- Biology, Medicine
- Molecular biology and evolution
- 2004
- 406
- PDF