Statistics 992 Special Topics seminar Statistical Phylogenetics: Comparative methods

Softwares for comparative analyses and divergence times

• ANCML by Dolph Schluter.
• Ape by Emmanuel Paradis. R Package.
• BayesTraits (formerly Discrete, MultiState and Continuous) along with other programs by Mark Pagel.
• Brownie by Brian O'Meara.
• CAIC by Andy Purvis. For Macintosh.
• COMPARE by Emília P. Martins.
• Multidivtime by Jeff Thorne.
• Ouch by Marguerite Butler. R package.
• Phylip by Joe Felsenstein. More specifically, its function Contrast.
• PHYLOGR by Ramón Díaz-Uriarte and Theodore Garland. Another R package.
• r8s by Mike Sanderson.
• Simmap by Jonathan P. Bollback. For Macintosh.