Fast and Slow Implementations of Relaxed-Clock Methods Show Similar Patterns of Accuracy in Estimating Divergence Times
Fast and Slow Implementations of Relaxed-Clock Methods Show Similar Patterns of Accuracy in Estimating Divergence Times
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DOI：
10.1093/molbev/msr100
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发表时间：
2011-09-01
影响因子：
10.7
通讯作者：
Kumar, Sudhir
中科院分区：
文献类型：
--
作者：
Battistuzzi, Fabia U.;Billing-Ross, Paul;Kumar, Sudhir
系统发育分析正在使用越来越大的数据集来估计分歧时间。随着数据大小的增加，所需的计算时间正在成为进化研究的瓶颈。我们最近对两个松弛时钟程序（BEAST和MultiDivTime [MDT]）的研究表明，它们在时间估计中是有用的;然而，即使对于较小的数据集，它们也会给生物学家带来显著的计算时间负担。在这里，我们报告的速度和精度的另一个松弛的时钟程序（MCMCMCTree，MC 2 T）。我们发现它比MDT和BEAST快得多，同时产生可比的时间估计。这些结果将鼓励更大的数据集的分析，以及评估的鲁棒性估计时间的变化模型的进化速率和时钟校准。
Phylogenetic analyses are using increasingly larger data sets for estimating divergence times. With this increase in data sizes, the computation time required is becoming a bottleneck in evolutionary investigations. Our recent study of two relaxed-clock programs (BEAST and MultiDivTime [MDT]) showed their usefulness in time estimation; however, they place a significant computational time burden on biologists even for moderately small data sets. Here, we report speed and accuracy of another relaxed-clock program (MCMCTree, MC2T). We find it to be much faster than both MDT and BEAST while producing comparable time estimates. These results will encourage the analysis of larger data sets as well as the evaluation of the robustness of estimated times to changes in the model of evolutionary rates and clock calibrations.