Jackknife and Bootstrap Tests of the Composition Vector Trees
نویسندگان
چکیده
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.
منابع مشابه
Comparison of three methods for estimating internal support on phylogenetic trees.
are then summarized as a bootstrap consensus tree. The frequency at which each clade is recovered is termed the bootstrap proportion, or bootstrap support. Jackknife analyses (reviewed by Miller, 1974) have also been used to estimate internal support on phylogenetic trees (e.g., Farris et al., 1996; Källersjö et al., 1999). The jackknife differs from the bootstrap in that characters are sampled...
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Because our method dose not base on alignment, it is impossible to perform the samplingover-sites bootstrap or jackknife as in the standard methods. Our previous work has developed a bootstrap strategy which samples over proteins in the proteomes (see Ref. 13 in the main text for details). As a merit of this method, it can be used to test whether dropping or adding some genes will alter the tre...
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