期刊
MOLECULAR ECOLOGY RESOURCES
卷 17, 期 4, 页码 608-613出版社
WILEY
DOI: 10.1111/1755-0998.12603
关键词
BEAST; date-randomization test; leave-one-out cross-validation; measurably-evolving populations; phylogenetic tip-dating
资金
- National Institute of Health [NIH AI076342, AI097137]
- European Research Council [ERC 260801]
- European Regional Development Fund (ERDF), Region Reunion
- CIRAD
Molecular tip dating of phylogenetic trees is a growing discipline that uses DNA sequences sampled at different points in time to coestimate the timing of evolutionary events with rates of molecular evolution. In this context, BEAST, a program for Bayesian analysis of molecular sequences, is the most widely used phylogenetic tool. Here, we introduce TIPDATINGBEAST, an R package built to assist the implementation of various phylogenetic tip-dating tests using BEAST. TIPDATINGBEAST currently contains two main functions. The first one allows preparing date-randomization analyses, which assess the temporal signal of a data set. The second function allows performing leave-one-out analyses, which test for the consistency between independent calibration sequences and allow pinpointing those leading to potential bias. We apply those functions to an empirical data set and supply practical guidance for results interpretation.
作者
我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。
推荐
暂无数据