Population genetics theory has laid the foundations for genomic analyses including the
recent burst in genome scans for selection and statistical inference of past demographic …

Our basic question is: Given a collection of DNA sequences, what underlying forces are
responsible for the observed patterns of variability? To approach this question we introduce …

We present a formalism for unifying the inference of population size from genetic sequences
and mathematical models of infectious disease in populations. Virus phylogenies have been …

This work reflects sixteen hours of lectures delivered by the author at the 2009 St Flour
summer school in probability. It provides a rapid introduction to a range of mathematical …

The field of phylodynamics, which attempts to enhance our understanding of infectious
disease dynamics using pathogen phylogenies, has made great strides in the past decade …

We investigate conditions under which a model with stochastic demography or population
structure converges to the coalescent with a linear change in timescale. We argue that this is …

The ability of the site-frequency spectrum (SFS) to reflect the particularities of gene
genealogies exhibiting multiple mergers of ancestral lines as opposed to those obtained in …

Nonequilibrium demography impacts coalescent genealogies leaving detectable, well-
studied signatures of variation. However, similar genomic footprints are also expected under …

Much of population genetics is based on the diffusion limit of the Wright–Fisher model, which
assumes a fixed population size. This assumption is violated in most natural populations …

For a genetic locus carrying a strongly beneficial allele which has just fixed in a large
population, we study the ancestry at a linked neutral locus. During this “selective sweep” the …