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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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03/08/2023
Many-core algorithms for high-dimensional gradients on phylogenetic trees
The rapid growth in genomic pathogen data spurs the need for efficient i...
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01/18/2022
Hamiltonian zigzag accelerates large-scale inference for conditional dependencies between complex biological traits
Inferring dependencies between complex biological traits while accountin...
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10/25/2021
Scalable Bayesian divergence time estimation with ratio transformations
Divergence time estimation is crucial to provide temporal signals for da...
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07/02/2021
Principled, practical, flexible, fast: a new approach to phylogenetic factor analysis
Biological phenotypes are products of complex evolutionary processes in ...
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05/15/2021
Shrinkage-based random local clocks with scalable inference
Local clock models propose that the rate of molecular evolution is const...
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03/30/2020
Deep reinforcement learning for large-scale epidemic control
Epidemics of infectious diseases are an important threat to public healt...
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03/23/2020
Efficient Bayesian Inference of General Gaussian Models on Large Phylogenetic Trees
Phylogenetic comparative methods correct for shared evolutionary history...
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02/01/2020
Online Bayesian phylodynamic inference in BEAST with application to epidemic reconstruction
Reconstructing pathogen dynamics from genetic data as they become availa...
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12/19/2019
Large-scale inference of correlation among mixed-type biological traits with Phylogenetic multivariate probit models
Inferring concerted changes among biological traits along an evolutionar...
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06/12/2019
Markov-modulated continuous-time Markov chains to identify site- and branch-specific evolutionary variation
Markov models of character substitution on phylogenies form the foundati...
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06/11/2019
Relaxed random walks at scale
Relaxed random walk (RRW) models of trait evolution introduce branch-spe...
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06/07/2019
Inferring phenotypic trait evolution on large trees with many incomplete measurements
Comparative biologists are often interested in inferring covariation bet...
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05/29/2019
Gradients do grow on trees: a linear-time O( N )-dimensional gradient for statistical phylogenetics
Calculation of the log-likelihood stands as the computational bottleneck...
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05/11/2019
Massive parallelization boosts big Bayesian multidimensional scaling
Big Bayes is the computationally intensive co-application of big data an...
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11/16/2017
