Discriminating and locating character covariance: an application of permutation tail probability (PTP) analyses.
The ability of permutation tail probability (PTP) analyses to discriminate between character covariance and noise is investigated with both hypothetical and published data sets. PTP is shown to be a powerful tool, not only for detecting character covariance, but also for locating that covariance on trees. PTP is especially useful for evaluating DNA sequence data that may have a high level of homoplasy. A three-step PTP procedure for locating covaried characters is presented.
Fu
J
J
Centre for Biodiversity and Conservation Biology, Royal Ontario Museum, Department of Zoology, University of Toronto, Toronto, Ontario, Canada M5S 2C6. jinzhong@rom.on.ca
Murphy
R W
RW
D000818:Animals; D002965:Classification / Q000379:methods*; D017839:Crotalus / Q000145:classification; D008954:Models, Biological; D010802:Phylogeny; D011336:Probability; D012455:Salamandridae / Q000145:classification