Estimating a time-calibrated phylogeny of fossil and extant taxa using RevBayes
Estimating a time-calibrated phylogeny of fossil and extant taxa using RevBayes
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使用 RevBayes 估计化石和现存类群的时间校准系统发育
DOI：
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发表时间：
2020
期刊：
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通讯作者：
T. Heath
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文献类型：
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作者：
Joëlle Barido‐Sottani;Joshua A. Justison;A. Wright;R. Warnock;W. Pett;T. Heath
化石记录是时间戳信息的主要来源，可用于确定系统发育树的年代;许多统计方法可用于整合化石和活物种的数据。在本教程中，我们将演示如何使用RevBayes程序从形态数据中执行化石和现存分类群的分歧时间和系统发育关系的联合推断。RevBayes（http：revbayes.com）是一个灵活而强大的贝叶斯系统发育推理工具。RevBayes中的统计模型是使用概率图形构建的
模型，并通过解释型编程语言进行描述。因此，RevBayes提供了广泛的统计模型-从具有很少参数的非常简单的模型到描述复杂生物过程的分层模型-这些模型在许多生物学领域都很有用。
应用.这里描述的练习提供了如何构建一个系统发育模型的指导，该模型将生物的出生-死亡过程和描述形态数据生成的模型结合起来，然后用于执行将现代和灭绝相结合的分析。
在一个过时的系统发育树中的分类群。本教程的内容和相关文件将保留
最新情况见：http://revbayes.com/tutorials/fbd_simple。
The fossil record is the primary source of time-stamped information useful for dating phylogenetic trees; and many statistical approaches are available for integrating data from fossil and living species. In this tutorial, we demonstrate how to perform joint inference of divergence times and phylogenetic relationships of fossil and extant taxa from morphological data using the program RevBayes. RevBayes (http://revbayes.com) is a flexible and powerful tool for Bayesian phylogenetic inference. Statistical models in RevBayes are built using probabilistic graphical
models and described via an interpreted programming language. As a result, RevBayes offers a wide range of statistical models—ranging from very simple models with few parameters to hierarchical models describing complex biological processes—that are useful in many biological
applications. The exercise described here provides instructions on how to construct a phylogenetic model combining the fossilized birth-death process and models describing the generation of morphological data, which is then used to execute an analysis that unites modern and extinct
taxa in a dated phylogenetic tree. The content and associated files for this tutorial are kept
up-to-date at: http://revbayes.com/tutorials/fbd_simple.