94 citations · 459 across the 72 of their papers we have counts for
31 papers · 1 filter
An adaptive time-tree transition kernel for Bayesian phylogenetic inference
Marius Brusselmans, Guy Baele, Samuel L. Hong +4
Bayesian phylogenetic and phylodynamic analyses can be very time-consuming, owing to the combination of complex models that are used to estimate key parameters from increasingly la…
BEAGLE 4.1: A high-performance library for computation on phylogenetic trees across diverse parallel architectures
Karthik Gangavarapu, Xiang Ji, Yucai Shao +4
Efficient evaluation of sequence data likelihoods and their high-dimensional gradients on phylogenetic trees improves inference under both maximum-likelihood and Bayesian framework…
Smoothly Time-Varying Continuous Time Markov Chains in Phylogenetics
Pratyusa Datta, Philippe Lemey, Marc A. Suchard
The dependence of evolutionary rate estimates on the timeframe of sampling poses a fundamental challenge for reconstructing evolutionary histories from molecular sequence data, whi…
Assessing the Validity of the Fixed Tree Topology Assumption in Phylodynamic Inference
Mathieu Fourment, Jiansi Gao, Marc A Suchard +1
Fixed tree topologies are widely used in phylodynamic analyses to reduce computational burden, yet the consequences of this assumption remain insufficiently understood. Here, we sy…
Detecting Evolutionary Change-Points with Branch-Specific Substitution Models and Shrinkage Priors
Xiang Ji, Benjamin Redelings, Shuo Su +6
Branch-specific substitution models are popular for detecting evolutionary change-points, such as shifts in selective pressure. However, applying such models typically requires pri…
Infinite Mixture Models for Improved Modeling of Across-Site Evolutionary Variation
Mandev S. Gill, Guy Baele, Marc A. Suchard +1
Scientific studies in many areas of biology routinely employ evolutionary analyses based on the probabilistic inference of phylogenetic trees from molecular sequence data. Evolutio…