General R reference sites

http://www.Rseek.org

http://crantastic.org/

Help and tutorials for comparative methods in R

NESCent Comparative methods in R HelpWiki

CRAN taskview for comparative methods

R-sig-phylo: A phylogenetic and comparative methods mailing list

R packages for comparative analyses

Package Overviews

Existing packages (hosted on CRAN)

ade4
Phylo-ordinations, tree plotting

ape
Many (read the book!)

geiger
Models of trait diversification, branch length scaling

ouch
Models of trait diversification

Other

Comparative Methods in R Hackathon @ NESCent