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Items: 1 to 20 of 83


Bayesian Total-Evidence Dating Reveals the Recent Crown Radiation of Penguins.

Gavryushkina A, Heath TA, Ksepka DT, Stadler T, Welch D, Drummond AJ.

Syst Biol. 2017 Jan 1;66(1):57-73. doi: 10.1093/sysbio/syw060. No abstract available.


bModelTest: Bayesian phylogenetic site model averaging and model comparison.

Bouckaert RR, Drummond AJ.

BMC Evol Biol. 2017 Feb 6;17(1):42. doi: 10.1186/s12862-017-0890-6.


Inferring Ancestral Recombination Graphs from Bacterial Genomic Data.

Vaughan TG, Welch D, Drummond AJ, Biggs PJ, George T, French NP.

Genetics. 2017 Feb;205(2):857-870. doi: 10.1534/genetics.116.193425.


Bayesian Total-Evidence Dating Reveals the Recent Crown Radiation of Penguins.

Gavryushkina A, Heath TA, Ksepka DT, Stadler T, Welch D, Drummond AJ.

Syst Biol. 2016 Aug 24. pii: syw060. [Epub ahead of print]


Bayesian phylogenetic estimation of fossil ages.

Drummond AJ, Stadler T.

Philos Trans R Soc Lond B Biol Sci. 2016 Jul 19;371(1699). pii: 20150129. doi: 10.1098/rstb.2015.0129.


Phylodynamics with Migration: A Computational Framework to Quantify Population Structure from Genomic Data.

Kühnert D, Stadler T, Vaughan TG, Drummond AJ.

Mol Biol Evol. 2016 Aug;33(8):2102-16. doi: 10.1093/molbev/msw064.


The space of ultrametric phylogenetic trees.

Gavryushkin A, Drummond AJ.

J Theor Biol. 2016 Aug 21;403:197-208. doi: 10.1016/j.jtbi.2016.05.001.


Computational Performance and Statistical Accuracy of *BEAST and Comparisons with Other Methods.

Ogilvie HA, Heled J, Xie D, Drummond AJ.

Syst Biol. 2016 May;65(3):381-96. doi: 10.1093/sysbio/syv118.


Evaluating a multigene environmental DNA approach for biodiversity assessment.

Drummond AJ, Newcomb RD, Buckley TR, Xie D, Dopheide A, Potter BC, Heled J, Ross HA, Tooman L, Grosser S, Park D, Demetras NJ, Stevens MI, Russell JC, Anderson SH, Carter A, Nelson N.

Gigascience. 2015 Oct 6;4:46. doi: 10.1186/s13742-015-0086-1.


How well can the exponential-growth coalescent approximate constant-rate birth-death population dynamics?

Stadler T, Vaughan TG, Gavryushkin A, Guindon S, Kühnert D, Leventhal GE, Drummond AJ.

Proc Biol Sci. 2015 May 7;282(1806):20150420. doi: 10.1098/rspb.2015.0420.


Inferring epidemiological dynamics with Bayesian coalescent inference: the merits of deterministic and stochastic models.

Popinga A, Vaughan T, Stadler T, Drummond AJ.

Genetics. 2015 Feb;199(2):595-607. doi: 10.1534/genetics.114.172791.


Bayesian inference of sampled ancestor trees for epidemiology and fossil calibration.

Gavryushkina A, Welch D, Stadler T, Drummond AJ.

PLoS Comput Biol. 2014 Dec 4;10(12):e1003919. doi: 10.1371/journal.pcbi.1003919.


Calibrated birth-death phylogenetic time-tree priors for bayesian inference.

Heled J, Drummond AJ.

Syst Biol. 2015 May;64(3):369-83. doi: 10.1093/sysbio/syu089. Erratum in: Syst Biol. 2016 Sep;65(5):943.


Efficient Bayesian inference under the structured coalescent.

Vaughan TG, Kühnert D, Popinga A, Welch D, Drummond AJ.

Bioinformatics. 2014 Aug 15;30(16):2272-9. doi: 10.1093/bioinformatics/btu201.


BEAST 2: a software platform for Bayesian evolutionary analysis.

Bouckaert R, Heled J, Kühnert D, Vaughan T, Wu CH, Xie D, Suchard MA, Rambaut A, Drummond AJ.

PLoS Comput Biol. 2014 Apr 10;10(4):e1003537. doi: 10.1371/journal.pcbi.1003537.


Simultaneous reconstruction of evolutionary history and epidemiological dynamics from viral sequences with the birth-death SIR model.

Kühnert D, Stadler T, Vaughan TG, Drummond AJ.

J R Soc Interface. 2014 Feb 26;11(94):20131106. doi: 10.1098/rsif.2013.1106.


Recursive algorithms for phylogenetic tree counting.

Gavryushkina A, Welch D, Drummond AJ.

Algorithms Mol Biol. 2013 Oct 28;8(1):26. doi: 10.1186/1748-7188-8-26.


Influenza a virus migration and persistence in North American wild birds.

Bahl J, Krauss S, Kühnert D, Fourment M, Raven G, Pryor SP, Niles LJ, Danner A, Walker D, Mendenhall IH, Su YC, Dugan VG, Halpin RA, Stockwell TB, Webby RJ, Wentworth DE, Drummond AJ, Smith GJ, Webster RG.

PLoS Pathog. 2013;9(8):e1003570. doi: 10.1371/journal.ppat.1003570.


A stochastic simulator of birth-death master equations with application to phylodynamics.

Vaughan TG, Drummond AJ.

Mol Biol Evol. 2013 Jun;30(6):1480-93. doi: 10.1093/molbev/mst057.


Simulating gene trees under the multispecies coalescent and time-dependent migration.

Heled J, Bryant D, Drummond AJ.

BMC Evol Biol. 2013 Feb 18;13:44. doi: 10.1186/1471-2148-13-44.

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