This site is for the research, software and publications of Andrew Rambaut and members of his research group.


The BEAST software package has its own website:

Dicussion forum for virus evolution and epidemiology:

Recent publications
Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK.
du Plessis L, McCrone JT, Zarebski AE, et al. (2021) Science 371, 708-712.
Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.
Volz E, Hill V, McCrone JT, et al. (2021) Cell 184, 64-75.
Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England.
Volz E, Mishra S, Chand M, et al. (2021) Nature
The proximal origin of SARS-CoV-2.
Andersen KG, Rambaut A, Lipkin WI, et al. (2020) Nature Medicine
Accommodating individual travel history and unsampled diversity in Bayesian phylogeographic inference of SARS-CoV-2.
Lemey P, Hong SL, Hill V, et al. (2020) Nature Communications 11, 5110.
Evolutionary origins of the SARS-CoV-2 sarbecovirus lineage responsible for the COVID-19 pandemic.
Boni MF, Lemey P, Jiang X, et al. (2020) Nature Microbiology 5, 1408-1417.
A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology.
Rambaut A, Holmes EC, O'Toole Á, et al. (2020) Nature Microbiology 5, 1403-1407.
The emergence of SARS-CoV-2 in Europe and North America.
Worobey M, Pekar J, Larsen BB, et al. (2020) Science 370, 564-570.
Virus genomes reveal the factors that spread and sustained the West African Ebola epidemic.
Dudas G, Carvalho LM, Bedford T, et al. (2017) Nature 2017/04/12/online
Ebola Virus Glycoprotein with Increased Infectivity Dominated the 2013-2016 Epidemic.
Diehl WE, Lin AE, Grubaugh ND, et al. (2016) Cell 167, 1088-1098.

Latest software
2019-06-13 - TempEst
Explore temporal signal and clocklikeness in trees (formerly Path-O-Gen)
2018-11-25 - FigTree
Produce high-quality figures of phylogenetic trees
2018-08-01 - BEAST
BEAST is a cross-platform program for Bayesian MCMC analysis of molecular sequences.
2018-05-01 - Tracer
A program for analysing results from Bayesian MCMC programs such as BEAST & MrBayes
2017-09-17 - Seq-Gen
An application for the Monte Carlo simulation of DNA and amino acid sequence evolution along phyloge(...)
2008-11-29 - TreeStat
A program that calculates summary statistics of a set of trees
2002-12-01 - Phylogen
2002-10-04 - TreeEdit

Andrew Rambaut, 2007