BEAST swMATH ID: 12588 Software Authors: Bouckaert, R., Heled, J., Kühnert, D., Vaughan, T., Wu, C-H., Xie, D., Suchard, MA., Rambaut, A., Drummond, A. J. Description: BEAST 2 is a cross-platform program for Bayesian phylogenetic analysis of molecular sequences. It estimates rooted, time-measured phylogenies using strict or relaxed molecular clock models. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology. BEAST 2 uses Markov chain Monte Carlo (MCMC) to average over tree space, so that each tree is weighted proportional to its posterior probability. BEAST 2 includes a graphical user-interface for setting up standard analyses and a suit of programs for analysing the results. Homepage: http://beast2.org/ Related Software: MrBayes; BEAUti; RAxML; fastDNAml; R; MEGA; ASTRAL-II; ape; PhyML; FastTree; PAUP*; MUSCLE; LAMARC; PhyloNet; Bali-phy; BEAGLE; Quartets MaxCut; Seq-Gen; NUTS; CODA Cited in: 59 Publications Standard Articles 1 Publication describing the Software, including 1 Publication in zbMATH Year Bayesian evolutionary analysis with BEAST. Zbl 1321.92022Drummond, Alexei J.; Bouckaert, Remco R. 2015 all top 5 Cited by 122 Authors 6 Palacios, Julia A. 4 Suchard, Marc A. 3 Cappello, Lorenzo 3 Drummond, Alexei J. 3 Gavryushkin, Alex 3 Kubatko, Laura Salter 3 Spade, David A. 3 Stadler, Tanja 2 Bhattacharya, Tanmoy 2 Bouckaert, Remco R. 2 Collienne, Lena 2 Fischer, Mareike 2 Gardner, Lauren M. 2 Giorgi, Elena Edi 2 Jones, Graham A. 2 Korber, Bette T. 2 Lemey, Philippe 2 Leviyang, Sivan 2 Matsen, Frederick A. IV 2 Perelson, Alan S. 2 Richards, Andrew 2 Warnow, Tandy J. 2 Whidden, Chris 2 Willis, Amy D. 1 Anisimova, Maria 1 Athreya, Gayathri S. 1 Ayabina, Diepreye 1 Babkin, Sergii 1 Baele, Guy 1 Bartoszek, Krzysztof 1 Bastide, Paul 1 Bedford, Trevor 1 Bell, Rayna 1 Bhaskar, Anand 1 Bomiriya, Rashmi P. 1 Bordewich, Magnus 1 Borges, Rui 1 Bryant, David 1 Bunge, John 1 Busch, Michael P. 1 Cazelles, Bernard 1 Chen, Guang-Wu 1 Chen, Minghui 1 Colijn, Caroline 1 Crespo, Fausto F. 1 Culliford, Richard 1 Cybis, Gabriela Bettella 1 Del Moral, Pierre 1 Delwart, Eric L. 1 Disanto, Filippo 1 Elmes, Kieran 1 Everitt, Richard Geoffrey 1 Fajardo, David 1 Ferreira, Marco A. R. 1 Francis, Andrew R. 1 Franck, Christopher T. 1 Gaschen, Brian 1 Gavryushkina, Aleksandra Anatol’evna 1 Goepfert, Paul A. 1 Gong, Yu-Nong 1 Grindstaff, Gillian Roxanne 1 Guindon, Stéphane 1 Guo, Hongbin 1 Hahn, Beatrice H. 1 Heath, Tracy A. 1 Herbei, Radu 1 Ho, Lam Si Tung 1 Höhna, Sebastian 1 Horton, Mitchel D. 1 Jarvis, Peter D. 1 Johndrow, James E. 1 Kaehler, Benjamin D. 1 Keefe, Matthew J. 1 Keele, Brandon F. 1 Kendall, Michelle 1 Kessler, David A. 1 Kim, Jaehee H. 1 Kimmel, Marek 1 Kosiol, Carolin 1 Kuo, Lynn 1 Lee, Ha Youn 1 Lewis, Paul O. 1 Linz, Simone 1 Liu, Sifan 1 Lopez, M. Graham 1 Maruvka, Yosef E. 1 Mather, Alison E. 1 Medina-Aguayo, Felipe J. 1 Michael Kilby, J. 1 Minin, Vladimir N. 1 Nakhleh, Luay 1 Neuwald, Andrew F. 1 Nguyen-Van-Yen, Benjamin 1 Ogilvie, Huw A. 1 Ostash, Bohdan 1 Owen, Megan 1 Pham, Kimmy T. 1 Posada, David 1 Rey, David 1 Rosenberg, Noah A. ...and 22 more Authors all top 5 Cited in 23 Serials 11 Journal of Theoretical Biology 5 Journal of Mathematical Biology 5 Theoretical Population Biology 3 Mathematical Biosciences 3 Bulletin of Mathematical Biology 3 The Annals of Applied Statistics 3 Journal of Computational and Graphical Statistics 2 Statistical Science 2 Statistical Applications in Genetics and Molecular Biology 2 Networks and Spatial Economics 2 Bayesian Analysis 1 Journal of Statistical Physics 1 Biometrics 1 Journal of Statistical Planning and Inference 1 Theoretical Computer Science 1 Advances in Applied Mathematics 1 Computational Statistics 1 Journal of Nonparametric Statistics 1 Computational Biology and Chemistry 1 Journal of Physics A: Mathematical and Theoretical 1 Computational Biology 1 Statistics and Computing 1 SIAM Journal on Applied Algebra and Geometry all top 5 Cited in 13 Fields 48 Biology and other natural sciences (92-XX) 25 Statistics (62-XX) 12 Combinatorics (05-XX) 10 Probability theory and stochastic processes (60-XX) 7 Numerical analysis (65-XX) 3 Computer science (68-XX) 3 Operations research, mathematical programming (90-XX) 3 Game theory, economics, finance, and other social and behavioral sciences (91-XX) 1 General and overarching topics; collections (00-XX) 1 Dynamical systems and ergodic theory (37-XX) 1 Integral equations (45-XX) 1 Convex and discrete geometry (52-XX) 1 Statistical mechanics, structure of matter (82-XX) Citations by Year