TOPD/FMTS：一款用于比较系统发育树的新软件。
TOPD/FMTS: a new software to compare phylogenetic trees.
作者信息
Puigbò Pere, Garcia-Vallvé Santiago, McInerney James O
机构信息
Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University, Tarragona, Spain.
出版信息
Bioinformatics. 2007 Jun 15;23(12):1556-8. doi: 10.1093/bioinformatics/btm135. Epub 2007 Apr 25.
SUMMARY
TOPD/FMTS has been developed to evaluate similarities and differences between phylogenetic trees. The software implements several new algorithms (including the Disagree method that returns the taxa, that disagree between two trees and the Nodal method that compares two trees using nodal information) and several previously described methods (such as the Partition method, Triplets or Quartets) to compare phylogenetic trees. One of the novelties of this software is that the FMTS (From Multiple to Single) program allows the comparison of trees that contain both orthologs and paralogs. Each option is also complemented with a randomization analysis to test the null hypothesis that the similarity between two trees is not better than chance expectation.
AVAILABILITY
The Perl source code of TOPD/FMTS is available at http://genomes.urv.es/topd.
摘要
TOPD/FMTS已被开发用于评估系统发育树之间的异同。该软件实现了几种新算法（包括返回两棵树之间不一致的分类群的“不一致方法”以及使用节点信息比较两棵树的“节点方法”）和几种先前描述的方法（如“分区方法”、“三元组”或“四元组”）来比较系统发育树。该软件的新颖之处之一在于FMTS（从多到单）程序允许比较同时包含直系同源物和旁系同源物的树。每个选项还辅以随机化分析，以检验两棵树之间的相似性不优于随机预期的零假设。
可用性
TOPD/FMTS的Perl源代码可在http://genomes.urv.es/topd获取。
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