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

News

The BEAST software package has its own website: http://beast.bio.ed.ac.uk

We now have a site for posting analyses and news about emerging infectious diseases: http://epidemic.bio.ed.ac.uk/. This includes a new section on the novel human 2c genotype coronavirus.

 
A special issue of Phil. Trans. Roy. Soc. B on “Next Generation Molecular & Evolutionary Epidemiology of Infectious Disease” is now available: http://rstb.royalsocietypublishing.org/content/368/

 
Recent publications
The proximal origin of SARS-CoV-2.
Andersen KG, Rambaut A, Lipkin WI, et al. (2020) Nature Medicine
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.
The Evolution of Ebola virus: Insights from the 2013-2016 Epidemic.
Holmes EC, Dudas G, Rambaut A, et al. (2016) Nature 538, 193-200.
MERS-CoV recombination: implications about the reservoir and potential for adaptation.
Dudas G & Rambaut A (2016) Virus Evolution 2, vev023.
Real-time, portable genome sequencing for Ebola surveillance.
Quick J, Loman NJ, Duraffour S, et al. (2016) Nature 530, 228-232.
Epidemic Reconstruction in a Phylogenetics Framework: Transmission Trees as Partitions of the Node Set .
Hall M, Woolhouse M & Rambaut A (2015) PLOS Comput Biol 11, e1004613.
Evolution and Spread of Ebola Virus in Liberia, 2014-2015.
Ladner JT, Wiley MR, Mate S, et al. (2015) Cell Host and Microbe 18, 659-669.
Ebola virus epidemiology, transmission, and evolution during seven months in Sierra Leone.
Park DJ, Dudas G, Wohl S, et al. (2015) Cell 161, 1516-1526.
Temporal and spatial analysis of the 2014-2015 Ebola virus outbreak in West Africa.
Carroll MW, Matthews DA, Hiscox JA, et al. (2015) Nature 524, 97-101.

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