熊荣川
每日翻译20190710
2019-7-12 07:02
阅读:206
标签:贝叶斯, 图形界面, MCMC

#编者信息

熊荣川

明湖实验室

xiongrongchuan@126.com

http://blog.sciencenet.cn/u/Bearjazz


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

 

计算进化生物学、统计系统发育学和基于溯祖理论的群体遗传学正日益成为分析和理解分子序列数据的焦点。我们提出了BEAST(基于抽样树的贝叶斯进化分析)1.7版软件包,该软件包使用马尔可夫链蒙特卡罗(MCMC)算法,实现贝叶斯系统发育推断、分化时间推定、溯祖分析、系统地理学和相关分子进化的一系列分析。软件包包括一个名为Bayesian进化分析程序(BEAUti)的图形增强用户界面程序,允许访问分子序列和表型特征进化的高级模型,这些模型以前只供开发人员使用。该包还提供了可视化的综合多物种溯祖分析和系统地理学分析的新工具。BEAUti BEAST 1.7GNU标准较低通用公共许可证下的开源软件,可从以下网址下载:

http://beast-mcmc.googlecode.com and   http://beast.bio.ed.ac.uk.

Drummond A J , Suchard M A , Xie D , et al. Bayesian Phylogenetics   with BEAUti and the BEAST 1.7[J]. Molecular Biology and Evolution, 2012,   29(8):1969-1973.


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