Article
On inconsistency of the neighbor-joining, least squares, and minimum evolution estimation when substitution processes are incorrectly modeled.
Molecular biology and evolution - 1 Sept 2004
Susko Edward, Inagaki Yuji, Roger Andrew J
Abstract excerpt
Using analytical methods, we show that under a variety of model misspecifications, Neighbor-Joining, minimum evolution, and least squares estimation procedures are statistically inconsistent. Failure to correctly account for differing rates-across-sites processes, failure to correctly model rate matrix parameters, and failure to adjust for parallel rates-across-sites changes (a rates-across-subtrees process) are...
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