A Stochastic Simulator of Birth–Death Master Equations with Application to Phylodynamics
暂无分享,去创建一个
[1] Kenneth Lange,et al. Accurate Stochastic Simulation via the Step Anticipation τ-Leaping (SAL) Algorithm , 2009, J. Comput. Biol..
[2] Jacques Rougemont,et al. Nemo: an evolutionary and population genetics programming framework , 2006, Bioinform..
[3] Tom Britton,et al. Stochastic epidemic models: a survey. , 2009, Mathematical biosciences.
[4] Fabio Zanini,et al. FFPopSim: an efficient forward simulation package for the evolution of large populations , 2012, Bioinform..
[5] P. Schuster,et al. Self-replication with errors. A model for polynucleotide replication. , 1982, Biophysical chemistry.
[6] A. Perelson,et al. Dynamics of HIV infection of CD4+ T cells. , 1993, Mathematical biosciences.
[7] A. Perelson. Modelling viral and immune system dynamics , 2002, Nature Reviews Immunology.
[8] Gabriel Cardona,et al. Extended Newick: it is time for a standard representation of phylogenetic networks , 2008, BMC Bioinformatics.
[9] M. Suchard,et al. Bayesian Phylogenetics with BEAUti and the BEAST 1.7 , 2012, Molecular biology and evolution.
[10] D. Gillespie. Approximate accelerated stochastic simulation of chemically reacting systems , 2001 .
[11] Hiroaki Kitano,et al. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models , 2003, Bioinform..
[12] Hamid Bolouri,et al. Dizzy: Stochastic Simulation of Large-scale Genetic Regulatory Networks , 2005, J. Bioinform. Comput. Biol..
[13] A. Rambaut,et al. BEAST: Bayesian evolutionary analysis by sampling trees , 2007, BMC Evolutionary Biology.
[14] A. Drummond,et al. Within-host demographic fluctuations and correlations in early retroviral infection. , 2012, Journal of theoretical biology.
[15] C. J-F,et al. THE COALESCENT , 1980 .
[16] W. O. Kermack,et al. A contribution to the mathematical theory of epidemics , 1927 .
[17] Andrew Rambaut,et al. Evolutionary analysis of the dynamics of viral infectious disease , 2009, Nature Reviews Genetics.
[18] A. J. Lotka. UNDAMPED OSCILLATIONS DERIVED FROM THE LAW OF MASS ACTION. , 1920 .
[19] R Core Team,et al. R: A language and environment for statistical computing. , 2014 .
[20] Brendan O'Fallon. TreesimJ: a flexible, forward time population genetic simulator , 2010, Bioinform..
[21] K. Crandall. The evolution of HIV , 1999 .
[22] Alexei J. Drummond,et al. Phylogenetic and epidemic modeling of rapidly evolving infectious diseases , 2011, Infection, Genetics and Evolution.
[23] Sheng Wu,et al. StochKit2: software for discrete stochastic simulation of biochemical systems with events , 2011, Bioinform..
[24] V. Volterra. Fluctuations in the Abundance of a Species considered Mathematically , 1926, Nature.
[25] A. Rodrigo,et al. Measurably evolving populations , 2003 .
[26] D. Gillespie. A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions , 1976 .