MAXIMUM-LIKELIHOOD INFERENCE OF PHYLOGENETIC TREES, WITH SPECIAL REFERENCE TO A POISSON-PROCESS MODEL OF DNA SUBSTITUTION AND TO PARSIMONY ANALYSES
MAXIMUM-LIKELIHOOD INFERENCE OF PHYLOGENETIC TREES, WITH SPECIAL REFERENCE TO A POISSON-PROCESS MODEL OF DNA SUBSTITUTION AND TO PARSIMONY ANALYSES
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DOI：
10.2307/2992355
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发表时间：
1990-12-01
期刊：
影响因子：
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通讯作者：
GOLDMAN, N
中科院分区：
文献类型：
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作者：
GOLDMAN, N
讨论了最大似然推理，并指出了它的一些优点和缺点。研究了最大似然推理在系统发育学中的应用，并使用 DNA 替换的简单泊松过程模型作为一个例子。更多的例子来自对传统“简约”和“兼容性”分析基础的隐式模型的澄清。从这些模型和分析的阐明中可以看出，泊松过程分析给出了统计上一致的系统发育估计，简约方法确实具有最大似然基础，但给出了可能不正确的系统发育估计。最大似然公式提供了一个共同的框架，在其中讨论和比较这些分析。
Maximum likelihood inference is discussed, and some of its advantage and disadvantages are noted. The application of maximum likelihood inference to phylogenetics is examined, and a simple Poisson process model of DNA substitution is used as one example. Further examples follow from the clarification of implict models underlying traditional "parsimony" and "compatibility" analyses. From the elucidation of these models and analyses, it is seen that Poisson process analysis gives a statistically consistent estimate of phylogeny, and that parsimony methods do indeed have a maximum likelihood foundation but give potentially incorrect estimates of phylogeny. The maximum likelihood formulation provides a common framework within which these analyses are discussed and compared.