Vladimir N. Minin

Performance-Based Selection of Likelihood Models for Phylogeny Estimation

Phylogenetic estimation has largely come to rely on explicitly model-based methods. This approach requires that a model be chosen and that that choice be justified. To date, jus...

Accounting for Uncertainty in the Tree Topology Has Little Effect on the Decision-Theoretic Approach to Model Selection in Phylogeny Estimation

Currently available methods for model selection used in phylogenetic analysis are based on an initial fixed-tree topology. Once a model is picked based on this topology, a rigor...

Smooth Skyride through a Rough Skyline: Bayesian Coalescent-Based Inference of Population Dynamics

Kingman's coalescent process opens the door for estimation of population genetics model parameters from molecular sequences. One paramount parameter of interest is the effective...

Counting labeled transitions in continuous-time Markov models of evolution

Learning to Count: Robust Estimates for Labeled Distances between Molecular Sequences

Researchers routinely estimate distances between molecular sequences using continuous-time Markov chain models. We present a new method, robust counting, that protects against t...