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Re: Martin 2004 critique (somewhat lengthy)



I wrote:

* OK, _if_ homoplasy is sufficiently rare, then phenetics and cladistics
give the same tree...

Er, sorry: the same _unrooted_ tree. UPGMA, WPGMA and the like always produce rooted trees... and like them NJ produces only one tree even if several would have the same length. So when a given data set with sufficiently little homoplasy has only one MPT, then NJ will find it (as will likelihood methods).