418 citations
- University of CanterburyNZ15 papers
- University of AucklandNZ7 papers
- Massey UniversityNZ5 papers
- ETH ZurichCH3 papers
- Laboratoire d'Informatique, de Robotique et de Microélectronique de MontpellierFR3 papers
- University of OtagoNZ3 papers
- Centre National de la Recherche ScientifiqueFR2 papers
- University of ArizonaUS2 papers
- Australian National UniversityAU1 paper
- SIB Swiss Institute of BioinformaticsCH1 paper
- Simon Fraser UniversityCA1 paper
- Texas Tech UniversityUS1 paper
24 papers
Computational Performance and Statistical Accuracy of *BEAST and Comparisons with Other Methods
Huw A. Ogilvie, Joseph Heled, Dong Xie +1
Under the multispecies coalescent model of molecular evolution, gene trees have independent evolutionary histories within a shared species tree. In comparison, supermatrix concaten…
Inferring epidemiological dynamics with Bayesian coalescent inference: The merits of deterministic and stochastic models
Alex Popinga, Tim Vaughan, Tanja Stadler +1
Estimation of epidemiological and population parameters from molecular sequence data has become central to the understanding of infectious disease dynamics. Various models have bee…
Bayesian inference of sampled ancestor trees for epidemiology and fossil calibration
Alexandra Gavryushkina, David Welch, Tanja Stadler +1
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 sample. As…
Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling
Stinus Lindgreen, Sinan Ugur Umu, Alicia Sook-Wei Lai +9
Noncoding RNAs are integral to a wide range of biological processes, including translation, gene regulation, host-pathogen interactions and environmental sensing. While genomics is…
Axiomatic opportunities and obstacles for inferring a species tree from gene trees
Mike Steel, Joel D. Velasco
The reconstruction of a central tendency `species tree' from a large number of conflicting gene trees is a central problem in systematic biology. Moreover, it becomes particularly…
Diversities and the Geometry of Hypergraphs
David Bryant, Paul F. Tupper
The embedding of finite metrics in has become a fundamental tool for both combinatorial optimization and large-scale data analysis. One important application is to network…