the 'ape' package is the essential tool for this and there is a book for it.

Cualquier duda puedo ayudar.

Saludos

I agree: it depends on your needs: ape is the basic one; phytools and phangorn are other examples.

for your information:

http://www.transmittingscience.org/courses/phylogeny/phylogenetic-analysis-using-r/

For classical phylogenetic you should start out with APE, as it is the really classical one. I personally think that phytools is a little bit more explicit, but can be usefull.