From Trajectories to Averages: An Improved Description of the Heterogeneity of Substitution Rates Along Lineages

Bayesian random local clocks, or one rate to rule them all

(2010) Alexei J Drummond et al.   BMC BIOLOGY

Sampling-through-time in birth–death trees

(2010) Tanja Stadler   JOURNAL OF THEORETICAL BIOLOGY

A Phylogenetic Model for Investigating Correlated Evolution of Substitution Rates and Continuous Phenotypic Characters

(2010) N. Lartillot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bayesian Estimation of Divergence Times from Large Sequence Alignments

(2010) S. Guindon   MOLECULAR BIOLOGY AND EVOLUTION

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

TreeTime: an extensible C++ software package for Bayesian phylogeny reconstruction with time-calibration

(2009) L. Himmelmann et al.   BIOINFORMATICS

On incomplete sampling under birth–death models and connections to the sampling-based coalescent

(2009) Tanja Stadler   JOURNAL OF THEORETICAL BIOLOGY

A Bayesian Perspective on a Non-parsimonious Parsimony Model

(2008) John P. Huelsenbeck et al.   SYSTEMATIC BIOLOGY