Emerging viruses have the potential to impose substantial mortality, morbidity and economic
burdens on human populations. Tracking the spread of infectious diseases to assist in their …

Genomic technologies have led to tremendous gains in understanding how pathogens
function, evolve and interact. Pathogen diversity is now measurable at high precision and …

Elaboration of Bayesian phylogenetic inference methods has continued at pace in recent
years with major new advances in nearly all aspects of the joint modelling of evolutionary …

We present a new open source, extensible and flexible software platform for Bayesian
evolutionary analysis called BEAST 2. This software platform is a re-design of the popular …

Abstract SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) is a novel virus of
the family Coronaviridae. The virus causes the infectious disease COVID-19. The biology of …

The reconstruction of ancestral scenarios is widely used to study the evolution of characters
along phylogenetic trees. One commonly uses the marginal posterior probabilities of the …

Phylogenetic analyses which include fossils or molecular sequences that are sampled
through time require models that allow one sample to be a direct ancestor of another …

A complex interplay of viral, host, and ecological factors shapes the spatio-temporal
incidence and evolution of human influenza viruses. Although considerable attention has …

When viruses spread, outbreaks can be spawned in previously unaffected regions.
Depending on the time and mode of introduction, each regional outbreak can have its own …

Birth–death stochastic processes are the foundations of many phylogenetic models and are
widely used to make inferences about epidemiological and macroevolutionary dynamics …