Genealogical Working Distributions for Bayesian Model Testing with Phylogenetic Uncertainty

πBUSS: a parallel BEAST/BEAGLE utility for sequence simulation under complex evolutionary scenarios

(2014) Filip Bielejec et al.   BMC BIOINFORMATICS

The early spread and epidemic ignition of HIV-1 in human populations

(2014) N. R. Faria et al.   SCIENCE

The Genealogical Population Dynamics of HIV-1 in a Large Transmission Chain: Bridging within and among Host Evolutionary Rates

(2014) Bram Vrancken et al.   PLoS Computational Biology

Bayesian evolutionary model testing in the phylogenomics era: matching model complexity with computational efficiency

(2013) G. Baele et al.   BIOINFORMATICS

Make the most of your samples: Bayes factor estimators for high-dimensional models of sequence evolution

(2013) Guy Baele et al.   BMC BIOINFORMATICS

Improved Harmonic Mean Estimator for Phylogenetic Model Evidence

(2012) Serena Arima et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Accurate Model Selection of Relaxed Molecular Clocks in Bayesian Phylogenetics

(2012) Guy Baele et al.   MOLECULAR BIOLOGY AND EVOLUTION

Improving Bayesian Population Dynamics Inference: A Coalescent-Based Model for Multiple Loci

(2012) M. S. Gill et al.   MOLECULAR BIOLOGY AND EVOLUTION

Improving the Accuracy of Demographic and Molecular Clock Model Comparison While Accommodating Phylogenetic Uncertainty

(2012) Guy Baele et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Choosing among Partition Models in Bayesian Phylogenetics

(2010) Y. Fan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Testing Spatiotemporal Hypothesis of Bacterial Evolution Using Methicillin-Resistant Staphylococcus aureus ST239 Genome-wide Data within a Bayesian Framework

(2010) R. R. Gray et al.   MOLECULAR BIOLOGY AND EVOLUTION

Improving Marginal Likelihood Estimation for Bayesian Phylogenetic Model Selection

(2010) Wangang Xie et al.   SYSTEMATIC BIOLOGY

Marginal likelihood estimation via power posteriors

(2008) N. Friel et al.   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

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

(2008) V. N. Minin et al.   MOLECULAR BIOLOGY AND EVOLUTION

Direct evidence of extensive diversity of HIV-1 in Kinshasa by 1960

(2008) Michael Worobey et al.   NATURE