Jackknife and Bootstrap Tests of the Composition Vector Trees

Composition vector trees （CVTrees） are inferred from whole-genome data by an alignment-free and parameter-free method. The agreement of these trees with the corresponding taxonomy provides an objective justification of the inferred phylogeny. In this work, we show the stability and self-consistency...

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Bibliographic Details
Published in:Genomics, proteomics & bioinformatics proteomics & bioinformatics, 2010-12, Vol.8 (4), p.262-267
Main Authors: Zuo, Guanghong, Xu, Zhao, Yu, Hongjie, Hao, Bailin
Format: Article
Language:English
Subjects:
Bootstrap
composition vector
CVTree
jackknife
Method
phylogeny
topological distance
亲缘关系
全基因
树木分类
系统发育树
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Summary:Composition vector trees （CVTrees） are inferred from whole-genome data by an alignment-free and parameter-free method. The agreement of these trees with the corresponding taxonomy provides an objective justification of the inferred phylogeny. In this work, we show the stability and self-consistency of CVTrees by performing bootstrap and jackknife re-sampling tests adapted to this alignment-free approach. Our ultimate goal is to advocate the viewpoint that time-consuming statistical re-sampling tests can be avoided at all in using this alignment-free approach. Agreement with taxonomy should be taken as a major criterion to estimate prokaryotic phylogenetic trees.
ISSN:1672-0229
2210-3244
DOI:10.1016/S1672-0229(10)60028-9