[Taxacom] Character transformation series on maximum likelihood and 'Bayesian' trees

[J. Kirk Fitzhugh]

Do phylogenetics programs that perform maximum likelihood or Bayesian 
analyses allow for indicating character state changes on resultant trees 
in the same way as is done with parsimony? More specifically, if a 
resultant tree has 'long branches,' can all state changes indicating 
that length be shown on a tree? PAUP* has a 'reconstruct' command that 
the manual says can be used for both parsimony- and likelihood-derived 
trees, but I'm curious if anyone has experience with the latter and if 
multiple state changes associated with long branches are actually mapped 
onto the tree.

Thanks,
Kirk

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J. Kirk Fitzhugh, Ph.D.
Curator of Polychaetes
Invertebrate Zoology Section
Research&  Collections Branch
Natural History Museum of Los Angeles County
900 Exposition Blvd
Los Angeles CA 90007
Phone: 213-763-3233
FAX: 213-746-2999
e-mail: kfitzhug at nhm.org
http://www.nhm.org/site/research-collections/polychaetous-annelids
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