Frost SD Pybus OG Gog JR Viboud C Bonhoeffer S Bedford T 2015 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. Basic epidemiological and evolutionary models are now well characterized with inferential frameworks in place. However, significant challenges remain in extending phylodynamic inference to more complex systems. These challenges include accounting for evolutionary complexities such as changing mutation rates, selection, reassortment, and recombination, as well as epidemiological complexities such as stochastic population dynamics, host population structure, and different patterns at the within-host and between-host scales. An additional challenge exists in making efficient inferences from an ever increasing corpus of sequence data. https://sonar.ch/global/documents/223278 eng info:eu-repo/semantics/altIdentifier/doi/10.1016/j.epidem.2014.09.001 info:eu-repo/semantics/altIdentifier/pmid/25843391 Epidemics. - 2015 Coalescent models Phylodynamics Recombination Selection Biological Evolution Communicable Diseases Genetic Variation Host-Pathogen Interactions Humans Models, Statistical Phylogeny Population Dynamics Recombination, Genetic Selection, Genetic Stochastic Processes Eight challenges in phylodynamic inference. http://purl.org/coar/resource_type/c_6501