Bayesian Phylogenetics with BEAUti and the BEAST 1.7
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
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DOI：
10.1093/molbev/mss075
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发表时间：
2012-08-01
影响因子：
10.7
通讯作者：
Rambaut, Andrew
中科院分区：
文献类型：
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作者：
Drummond, Alexei J.;Suchard, Marc A.;Rambaut, Andrew
计算进化生物学、统计系统发育学和基于聚合体的种群遗传学正日益成为分析和理解分子序列数据的核心。我们介绍了贝叶斯抽样树进化分析(BEAST)软件包1.7版，它实现了一系列马尔可夫链蒙特卡罗(MCMC)算法，用于贝叶斯系统发育推断、分歧时间测年、合并分析、系统地理学和相关的分子进化分析。该软件包包括一个名为贝叶斯进化分析实用程序(BEARTI)的增强型图形用户界面程序，该程序允许访问以前仅供开发人员使用的分子序列和表型性状进化的高级模型。该包还提供了可视化和汇总多物种合并和系统地理分析的新工具。Beauti和Beast1.7在GNU less通用公共许可证下是开源的，可以在http://beast-mcmc.googlecode.comandhttp://beast.bio.ed.ac.uk.上获得
Computational evolutionary biology, statistical phylogenetics and coalescent-based population genetics are becoming increasingly central to the analysis and understanding of molecular sequence data. We present the Bayesian Evolutionary Analysis by Sampling Trees (BEAST) software package version 1.7, which implements a family of Markov chain Monte Carlo (MCMC) algorithms for Bayesian phylogenetic inference, divergence time dating, coalescent analysis, phylogeography and related molecular evolutionary analyses. This package includes an enhanced graphical user interface program called Bayesian Evolutionary Analysis Utility (BEAUti) that enables access to advanced models for molecular sequence and phenotypic trait evolution that were previously available to developers only. The package also provides new tools for visualizing and summarizing multispecies coalescent and phylogeographic analyses. BEAUti and BEAST 1.7 are open source under the GNU lesser general public license and available at http://beast-mcmc.googlecode.comandhttp://beast.bio.ed.ac.uk.