Phylogenetics: APE Lab

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Adiantum.png EEB 349: Phylogenetics
This lab is an introduction to some of the capabilities of APE, a phylogenetic analysis package written for the R language. You may want to review the R Primer lab if you've already forgotten everything you learned about R.

Installing APE and related programs

Rlogo.jpg
APE is a package written and supported largely by Emmanuel Paradis, who has written a very nice book\ref{Paradis, E. 2006. Analysis of phylogenetics and evolution with R. Springer. ISBN: 0-387-32914-5} explaining in detail how to use APE. APE is designed to be used inside the R programming language, to which you were introduced earlier in the semester (see Phylogenetics: R Primer).
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