Cross-validation to select Bayesian hierarchical models in phylogenetics
Sebastian Duchene, David A Duchene, Francesca Di Giallonardo, John-Sebastian Eden, Jemma L Geoghegan, Kathryn E Holt, Simon YW Ho, Edward C Holmes
BMC EVOLUTIONARY BIOLOGY | BMC | Published : 2016
BACKGROUND: Recent developments in Bayesian phylogenetic models have increased the range of inferences that can be drawn from molecular sequence data. Accordingly, model selection has become an important component of phylogenetic analysis. Methods of model selection generally consider the likelihood of the data under the model in question. In the context of Bayesian phylogenetics, the most common approach involves estimating the marginal likelihood, which is typically done by integrating the likelihood across model parameters, weighted by the prior. Although this method is accurate, it is sensitive to the presence of improper priors. We explored an alternative approach based on cross-validat..View full abstract
Awarded by NHMRC Australia Fellowship
Awarded by NHMRC of Australia
Awarded by National Health and Medical Research Council of Australia
This research was funded by an NHMRC Australia Fellowship (AF30) awarded to E.C.H. S.Y.W.H. was supported by the Australian Research Council. KEH was supported by the NHMRC of Australia (Fellowship #1061409).