Dear colleagues,
Registration is open for Transmitting Science course: "USING GEIGER, PHYTOOLS, AND OTHER COMPUTATIONAL TOOLS TO STUDY MACROEVOLUTION ON PHYLOGENIES"
Dates and place: July 16th-19th, 2019, Crete (Greece).
Instructors: Dr Liam Revell (University of Massachusetts Boston, USA) and Dr Luke Harmon (University of Idaho, USA).
PROGRAM
Monday
- Introduction to phylogenies and the comparative method. [Lecture]
- Introduction the basics of the R statistical computing environment. [Exercise]
- Introduction to reading, writing, manipulating, and visualizing phylogenies and comparative data in R. [Exercise]
- Models of phenotypic trait evolution on trees: Brownian motion. [Lecture]
- Simulating Brownian motion on trees using R. [Exercise]
- Introduction to the phylogenetic comparative method: Phylogenetic independent contrasts. [Lecture]
- Phylogenetic independent contrasts and exploring the properties of contrasts regression using simulation in R. [Exercise]
- Phylogenetic generalized least squares regression and phylogenetic generalized ANOVA. [Exercise]
Tuesday
- Multivariate statistical methods with phylogenies: Phylogenetic principal components analysis, canonical correlation analysis, and other approaches. [Lecture]
- Phylogenetic PCA and phylogenetic CCA in R. [Exercise]
- Continuous character models of trait evolution on phylogenies. [Lecture]
- Fitting continuous character models to univariate trait data in R. [Exercise]
- Ancestral state reconstruction I: Continuous characters. [Lecture]
- Reconstructing ancestral states for continuous traits on phylogenies using R. [Exercise]
Wednesday
- Ancestral state reconstruction II: Discrete characters. [Lecture]
- Reconstructing ancestral states for discrete traits on phylogenies using R. [Exercise]
- Exploring the limitations of ancestral state reconstruction for continuous and discrete characters on phylogenies using R. [Exercise]
- Testing for the influence of one discrete character on a second using Pagel's (1994) method. [Lecture]
- Exploring the promise and limitations of the Pagel (1994) method using R. [Exercise]
- Analysing discrete character coevolution, and the evolution of discrete and continuous characters using the threshold model. [Lecture]
Thursday
- Fitting models of discrete and continuous character evolution on trees using the threshold model. [Exercise]
- Multi-rate, multi-regime, and multivariate models of character evolution on phylogenies. [Lecture]
- Fitting multi-regime and multivariate models for continuous character evolution in - [Exercise]
- Visualizing trees and phylogenetic comparative data. [Lecture]
- Plotting phylogenies and comparative data using R. [Exercise]
- Wrap-up and optional additional exercise or lecture.
More information and registration [https://www.transmittingscience.org/courses/evolution/using-geiger-phytools-other-computational-tools-study-macroevolution-phylogenies/](https://www.transmittingscience.org/courses/evolution/using-geiger-phytools-other-computational-tools-study-macroevolution-phylogenies/)
With best regards
Sole