adephylo: new tools for investigating the phylogenetic signal in biological traits
adephylo: new tools for investigating the phylogenetic signal in biological traits
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DOI：
10.1093/bioinformatics/btq292
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发表时间：
2010-08-01
期刊：
影响因子：
5.8
通讯作者：
Dray, Stephane
中科院分区：
文献类型：
--
作者：
Jombart, Thibaut;Balloux, Francois;Dray, Stephane
阿德菲罗是R软件的一个包，致力于分析比较进化数据。系统发育比较方法，最初的目的是在生物特性分析中考虑或消除系统发育信号的影响。然而，最近的方法表明，从系统发育信号的研究中可以收集到相当多的信息。特别是，对系统发育结构的仔细研究可以揭示有趣的进化模式。为此，我们开发了包ADAPHLO，它提供了量化和描述生物特征的系统发育结构的工具。阿德库罗实现了系统发育信号、系统发育距离和亲缘关系的测试，以及描述进一步单变量和多变量系统发育结构的新方法。这些工具为进化比较数据的分析开辟了新的视角。
adephylo is a package for the R software dedicated to the analysis of comparative evolutionary data. Phylogenetic comparative methods initially aimed at accounting for or removing the effects of phylogenetic signal in the analysis of biological traits. However, recent approaches have shown that considerable information can be gathered from the study of the phylogenetic signal. In particular, close examination of phylogenetic structures can unveil interesting evolutionary patterns. For this purpose, we developed the package adephylo that provides tools for quantifying and describing the phylogenetic structures of biological traits. adephylo implements tests of phylogenetic signal, phylogenetic distances and proximities, and novel methods for describing further univariate and multivariate phylogenetic structures. These tools open up new perspectives in the analysis of evolutionary comparative data.