workshop-OSU
Materials for short course on diversification rates at Oregon State University, June 21-23
Overview
Welcome to the 2017 Short Course on Macroevolution organized by Dan Rabosky (University of Michigan) and Brian Sidlauskas (OSU). This course will introduce you to several current approaches to inferring macroevolutionary dynamics with phylogenies including BAMM.
Location: Room 032 Nash Hall
Course Url: https://tinyurl.com/osu-macro-2017
Instructors
Dan Rabosky, University of Michigan
Michael Alfaro, UCLA
Jonathan Mitchell, University of Michigan
Jonathan Chang, UCLA
Pascal Title, University of Michigan
Schedule
Thursday 22 June
- R basics. script Rabosky
- Simulating trees with temporal variation in rates. script Rabosky
- Simulating trees with rate variation among clades. script Rabosky
- Trait dependent diversification. script Rabosky
- Rate variable models in RPANDA. link pdf Alfaro
- Derivation of pure birth model pdf Rabosky
Friday 23 June
- fossilBAMM script Mitchell
Supporting functions
Datasets
accipitrids
actinopterygii
anolis
birds
canidae
- canidae/canidae.tre
- canidae/control.txt
- canidae/fossil_event_data.txt
- canidae/fossil_mcmc_out.txt
- canidae/sampling.txt
fisse testdata
horses
jetz birds
salamander
- salamander/control.txt
- salamander/control_extant.txt
- salamander/event_data.txt
- salamander/extant.tre
- salamander/mcmc_out.txt
- salamander/salamandridae.tre