Explaining broad molecular, phenotypic and species biodiversity patterns necessitates a
unifying framework spanning multiple evolutionary scales. Here we argue that although …

Resolving the genealogy of life—the phylogenetic relationships that describe the
evolutionary history of species—remains one of the great challenges of systematic biology …

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 …

Patterns of genetic variation across populations are influenced by mutation, selection,
genetic drift, and migrations. Building models of evolution... Understanding variation in allele …

The sample frequency spectrum (SFS), or histogram of allele counts, is an important
summary statistic in evolutionary biology, and is often used to infer the history of population …

A comprehensive account of both basic and advanced material in phylogeny estimation,
focusing on computational and statistical issues. No background in biology or computer …

Recent studies suggest that closely related species can accumulate substantial genetic and
phenotypic differences despite ongoing gene flow, thus challenging traditional ideas …

Genome-scale sequencing has been of great benefit in recovering species trees but has not
provided final answers. Despite the rapid accumulation of molecular sequences, resolving …

The impact of incomplete lineage sorting (ILS) on phylogenetic conflicts among genes, and
the related issue of whether to account for ILS in species tree reconstruction, are matters of …

Gene tree discordance is now recognized as a major source of biological heterogeneity.
How to deal with this heterogeneity is an unsolved problem, as the accurate inference of …