SpreaD3：时空历史与性状进化过程的交互式可视化
SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes.
作者信息
Bielejec Filip, Baele Guy, Vrancken Bram, Suchard Marc A, Rambaut Andrew, Lemey Philippe
机构信息
Department of Microbiology and Immunology, KU Leuven - University of Leuven, Rega Institute, Leuven, Belgium
Department of Microbiology and Immunology, KU Leuven - University of Leuven, Rega Institute, Leuven, Belgium.
出版信息
Mol Biol Evol. 2016 Aug;33(8):2167-9. doi: 10.1093/molbev/msw082. Epub 2016 Apr 23.
Model-based phylogenetic reconstructions increasingly consider spatial or phenotypic traits in conjunction with sequence data to study evolutionary processes. Alongside parameter estimation, visualization of ancestral reconstructions represents an integral part of these analyses. Here, we present a complete overhaul of the spatial phylogenetic reconstruction of evolutionary dynamics software, now called SpreaD3 to emphasize the use of data-driven documents, as an analysis and visualization package that primarily complements Bayesian inference in BEAST (http://beast.bio.ed.ac.uk, last accessed 9 May 2016). The integration of JavaScript D3 libraries (www.d3.org, last accessed 9 May 2016) offers novel interactive web-based visualization capacities that are not restricted to spatial traits and extend to any discrete or continuously valued trait for any organism of interest.
基于模型的系统发育重建越来越多地将空间或表型特征与序列数据结合起来，以研究进化过程。除了参数估计之外，祖先重建的可视化是这些分析不可或缺的一部分。在这里，我们对进化动力学软件的空间系统发育重建进行了全面更新，现在称为SpreaD3，以强调数据驱动文档的使用，它是一个分析和可视化软件包，主要作为BEAST中贝叶斯推断的补充（http://beast.bio.ed.ac.uk，最后访问时间为2016年5月9日）。JavaScript D3库（www.d3.org，最后访问时间为2016年5月9日）的集成提供了新颖的基于网络的交互式可视化功能，这些功能不仅限于空间特征，还扩展到任何感兴趣生物体的任何离散或连续取值的特征。
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