Rambaut A, Grassly N C
Department of Zoology, University of Oxford, UK.
Comput Appl Biosci. 1997 Jun;13(3):235-8. doi: 10.1093/bioinformatics/13.3.235.
Seq-Gen is a program that will simulate the evolution of nucleotide sequences along a phylogeny, using common models of the substitution process. A range of models of molecular evolution are implemented, including the general reversible model. Nucleotide frequencies and other parameters of the model may be given and site-specific rate heterogeneity can also be incorporated in a number of ways. Any number of trees may be read in and the program will produce any number of data sets for each tree. Thus, large sets of replicate simulations can be easily created. This can be used to test phylogenetic hypotheses using the parametric bootstrap.
Seq-Gen can be obtained by WWW from http:/(/)evolve.zoo.ox.ac.uk/Seq-Gen/seq-gen.html++ + or by FTP from ftp:/(/)evolve.zoo.ox.ac.uk/packages/Seq-Gen/. The package includes the source code, manual and example files. An Apple Macintosh version is available from the same sites.
Seq - Gen是一个程序，它将使用常见的替换过程模型来模拟核苷酸序列沿着系统发育树的进化。该程序实现了一系列分子进化模型，包括一般可逆模型。可以给出核苷酸频率和模型的其他参数，并且位点特异性速率异质性也可以通过多种方式纳入。可以读取任意数量的树，并且程序将为每棵树生成任意数量的数据集。因此，可以轻松创建大量的重复模拟。这可用于使用参数自展法来检验系统发育假设。
可以通过万维网从http:/(/)evolve.zoo.ox.ac.uk/Seq - Gen/seq - gen.html++ +获取Seq - Gen，或者通过文件传输协议从ftp:/(/)evolve.zoo.ox.ac.uk/packages/Seq - Gen/获取。该软件包包括源代码、手册和示例文件。相同站点提供苹果麦金塔版本。
