treetime:带时间戳的系统发育和祖先重建的最大似然推断

上传者: 42117150 | 上传时间: 2022-11-17 09:45:24 | 文件大小: 426KB | 文件类型: ZIP
TreeTime:最大似然定年和祖先序列推断 概述 TreeTime提供了用于祖先序列重建和分子钟系统发生学推论的例程,即一棵树,其中所有分支都按比例缩放,使得末端节点的位置对应于其采样时间,内部节点位于最可能的发散时间。 为了优化时间尺度系统发育的可能性,TreeTime使用一种迭代方法,该方法首先根据给定的树的分支长度来推断祖先序列,然后优化时间轴上不受约束的节点的位置,然后重复此循环。 唯一的拓扑优化是(可选)解析多面体的方式,这种方式与树上的采样时间约束最(近似)一致。 该软件包旨在用作命令行上的独立工具,或用作较大的系统发育分析工作流程中使用的库。 。 除了脚本TreeTime或经由命令行使用它,也有在一个小型Web服务器 。 看看我们的和。 特征 祖先序列重建(边缘和联合最大似然) 分子时钟树推论(边际和联合最大似然) GTR模型的推论 重生以最大化时间信号并优化根尖

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