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06/28/2023
On the surprising effectiveness of a simple matrix exponential derivative approximation, with application to global SARS-CoV-2
The continuous-time Markov chain (CTMC) is the mathematical workhorse of...
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03/23/2023
Random-effects substitution models for phylogenetics via scalable gradient approximations
Phylogenetic and discrete-trait evolutionary inference depend heavily on...
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09/16/2021
How trustworthy is your tree? Bayesian phylogenetic effective sample size through the lens of Monte Carlo error
Bayesian inference is a popular and widely-used approach to infer phylog...
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11/28/2018
19 dubious ways to compute the marginal likelihood of a phylogenetic tree topology
The marginal likelihood of a model is a key quantity for assessing the e...
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11/27/2018
Systematic Exploration of the High Likelihood Set of Phylogenetic Tree Topologies
Bayesian Markov chain Monte Carlo explores tree space slowly, in part be...
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08/13/2018