HowTo/Table of Contents

From R-Phylo Wiki

Table of Contents

Getting Started

• Downloading and installing R and packages
• Overview of analyses and packages available in R
• Basics of using R
• Inputting trees
• Inputting data
• Basic tree and data manipulation
• Using vignettes

Analyses

• Ancestral state reconstruction
• Diversification analyses
• Estimating divergence times
• Modeling discrete character evolution
• Modeling continuous character evolution
• PGLS - testing for correlated evolution
• Phylogenetic independent contrasts
• Using Mesquite in R
• Estimating Phylogenetic Signal click here to go to Rich Glor's page on the Bodega Applied Phylogenetics Workshop.

Much of the information in the HowTo is based on the book Paradis, E. 2006. Analysis of Phylogenetics and Evolution using R. New York, Springer. 211 pp. available from Springer

If you still can't find the information you need, try contacting the mailing list with your specific question.