Working Group
A major trend in evolutionary biology is the progression towards analytical approaches that synthesize a wide array of data sources to test hypotheses about evolutionary history and the processes the produced it. In this context, Bayesian inference has proved particularly useful in allow the direct incorporation of information from the fossil record, molecular sequences, geographical locations and habitat into coherent model-based estimation and hypothesis testing procedures. The BEAST software package provide a broard range of models for evolutionary analysis from coalescent-based population genetics to relaxed phylogenetics.
The aim of this project is to coordinate activities in this burgeoning area, through a series of working group meetings centered around developments of the open source BEAST software package. The output of these meeting will be version 2.0 of the BEAST software, with an ambitious set of goals including the Bayesian phylogenetic analysis of trees with >1000 taxa. This working group will bring together evolutionary biologists, biostatiticians and software developers from three continents, that span the full range of evolutionary analysis from population genetics to molecular ecology and deep phylogeny.
Software for bayesian evolutionary analysis by sampling trees
PI(s): | Alexei Drummond (University of Auckland) Marc Suchard (University of California-Los Angeles) Andrew Rambaut (University of Edinburgh) |
Start Date: | 1-Jun-2009 |
End Date: | 31-Mar-2011 |
Keywords: | phylogenetics, population genetics |
A major trend in evolutionary biology is the progression towards analytical approaches that synthesize a wide array of data sources to test hypotheses about evolutionary history and the processes the produced it. In this context, Bayesian inference has proved particularly useful in allow the direct incorporation of information from the fossil record, molecular sequences, geographical locations and habitat into coherent model-based estimation and hypothesis testing procedures. The BEAST software package provide a broard range of models for evolutionary analysis from coalescent-based population genetics to relaxed phylogenetics.
The aim of this project is to coordinate activities in this burgeoning area, through a series of working group meetings centered around developments of the open source BEAST software package. The output of these meeting will be version 2.0 of the BEAST software, with an ambitious set of goals including the Bayesian phylogenetic analysis of trees with >1000 taxa. This working group will bring together evolutionary biologists, biostatiticians and software developers from three continents, that span the full range of evolutionary analysis from population genetics to molecular ecology and deep phylogeny.
Related products
Software and DatasetsPublications- Ancient Hybridization and an Irish Origin for the Modern Polar Bear Matriline Ceiridwen J. Edwards, Marc A. Suchard, Philippe Lemey, John J. Welch, Ian Barnes, Tara L. Fulton, Ross Barnett, Tamsin C. O'Connell, Peter Coxon, Nigel Monaghan, Cristina E. Valdiosera, Eline D. Lorenzen, Eske Willerslev, Gennady F. Baryshnikov, Andrew Rambaut, Mark G. Thomas, Daniel G. Bradley and Beth Shapiro. 2011, Ancient Hybridization and an Irish Origin for the Modern Polar Bear Matriline, Current Biology, volume 21, issue 15, pp. 1251-1258
- A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages B. Shapiro, S. Y. W. Ho, A. J. Drummond, M. A. Suchard, O. G. Pybus and A. Rambaut (2011) A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages, Molecular Biology and Evolution, volume 28, issue 2, pp. 879-887
- S.N. Bennett, A.J. Drummond, D.D. Kapan, M.A. Suchard, J.L. Munoz-Jordan, O.G. Pybus, E.C. Holmes and D.J. Gubler 2010 Epidemic Dynamics Revealed in Dengue Evolution, Molecular Biology and Evolution, volume 27, issue 4, pp. 811-818
- P. F. Campos, E. Willerslev, A. Sher, L. Orlando, E. Axelsson, A. Tikhonov, K. Aaris-Sorensen, A. D. Greenwood, R.-D. Kahlke, P. Kosintsev, T. Krakhmalnaya, T. Kuznetsova, P. Lemey, R. MacPhee, C. A. Norris, K. Shepherd, M. A. Suchard, G. D. Zazula, B. Shapiro and M. T. P. GilbertAncient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (Ovibos moschatus) population dynamics, Proceedings of the National Academy of Sciences, volume 107, issue 12, pp. 5675-5680
- E. W. Bloomquist and M. A. Suchard 2010 Unifying Vertical and Nonvertical Evolution: A Stochastic ARG-based Framework, Systematic Biology, volume 59, issue 1, pp. 27-41
- Bayesian Phylogeography Finds Its Roots Lemey, P., A. Rambaut, A.J. Drummond, M.A. Suchard, and C. Fraser (2009). Bayesian phylogeography finds its roots. PLoS Computational Biology 5(9): e1000520.