7 citations · 21 across the 9 of their papers we have counts for
9 papers
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…
Many-core algorithms for high-dimensional gradients on phylogenetic trees
Karthik Gangavarapu, Xiang Ji, Guy Baele +4
The rapid growth in genomic pathogen data spurs the need for efficient inference techniques, such as Hamiltonian Monte Carlo (HMC) in a Bayesian framework, to estimate parameters o…
TreeFlow: probabilistic modelling and automatic differentiation for phylogenetics
Christiaan Swanepoel, Mathieu Fourment, Xiang Ji +4
Probabilistic modelling frameworks are powerful tools for statistical modelling and inference. They are not immediately generalizable to phylogenetic problems due to the particular…
Automatic differentiation is no panacea for phylogenetic gradient computation
Mathieu Fourment, Christiaan J. Swanepoel, Jared G. Galloway +4
Gradients of probabilistic model likelihoods with respect to their parameters are essential for modern computational statistics and machine learning. These calculations are readily…
Computational Statistics and Data Science in the Twenty-first Century
Andrew J. Holbrook, Akihiko Nishimura, Xiang Ji +1
Data science has arrived, and computational statistics is its engine. As the scale and complexity of scientific and industrial data grow, the discipline of computational statistics…
Massive Parallelization of Massive Sample-size Survival Analysis
Jianxiao Yang, Martijn J. Schuemie, Xiang Ji +1
Large-scale observational health databases are increasingly popular for conducting comparative effectiveness and safety studies of medical products. However, increasing number of p…
Accelerating Bayesian inference of dependency between complex biological traits
Zhenyu Zhang, Akihiko Nishimura, Nídia S. Trovão +5
Inferring dependencies between complex biological traits while accounting for evolutionary relationships between specimens is of great scientific interest yet remains infeasible wh…
Scalable Bayesian divergence time estimation with ratio transformations
Xiang Ji, Alexander A. Fisher, Shuo Su +5
Divergence time estimation is crucial to provide temporal signals for dating biologically important events, from species divergence to viral transmissions in space and time. With t…
Bayesian mitigation of spatial coarsening for a Hawkes model applied to gunfire, wildfire and viral contagion
Andrew J. Holbrook, Xiang Ji, Marc A. Suchard
Self-exciting spatiotemporal Hawkes processes have found increasing use in the study of large-scale public health threats ranging from gun violence and earthquakes to wildfires and…