84 citations · 221 across the 24 of their papers we have counts for
25 papers
Leaping through tree space: continuous phylogenetic inference for rooted and unrooted trees
Matthew J Penn, Neil Scheidwasser, Joseph Penn +3
Phylogenetics is now fundamental in life sciences, providing insights into the earliest branches of life and the origins and spread of epidemics. However, finding suitable phylogen…
Deep learning and MCMC with aggVAE for shifting administrative boundaries: mapping malaria prevalence in Kenya
Elizaveta Semenova, Swapnil Mishra, Samir Bhatt +2
Model-based disease mapping remains a fundamental policy-informing tool in the fields of public health and disease surveillance. Hierarchical Bayesian models have emerged as the st…
A comparison of short-term probabilistic forecasts for the incidence of COVID-19 using mechanistic and statistical time series models
Nicolas Banholzer, Thomas Mellan, H Juliette T Unwin +3
Short-term forecasts of infectious disease spread are a critical component in risk evaluation and public health decision making. While different models for short-term forecasting h…
Phylo2Vec: a vector representation for binary trees
Matthew J Penn, Neil Scheidwasser, Mark P Khurana +3
Binary phylogenetic trees inferred from biological data are central to understanding the shared history among evolutionary units. However, inferring the placement of latent nodes i…
The interaction of transmission intensity, mortality, and the economy: a retrospective analysis of the COVID-19 pandemic
Christian Morgenstern, Daniel J. Laydon, Charles Whittaker +4
The COVID-19 pandemic has caused over 6.4 million registered deaths to date and has had a profound impact on economic activity. Here, we study the interaction of transmission, mort…
Cox-Hawkes: doubly stochastic spatiotemporal Poisson processes
Xenia Miscouridou, Samir Bhatt, George Mohler +2
Hawkes processes are point process models that have been used to capture self-excitatory behavior in social interactions, neural activity, earthquakes and viral epidemics. They can…