Course Using Geiger, Phytools, and other Computational Tools to Study Macroevolution on Phylogenies, 16-19 July, Greece.

[Soledad De Esteban Trivigno]

Dear colleagues,

Registration is open for Transmitting Science course: "USING GEIGER,
PHYTOOLS, AND OTHER COMPU TATIONAL TOOLS TO STUDY MACROEVOLUTION ON
PHYLOGENIES"

Dates an d place: July 16th-19th, 2019, Crete (Greece).

Instructors: Dr Liam R evell (University of Massachusetts Boston,
USA) and Dr Luke Harmon (Univers ity of Idaho, USA).

PROGRAM

Monday

- Introduction to phyl ogenies and the comparative method. [Lecture]

- Introduction the basics of the R statistical computing
environment. [Exercise]

- Introduction to reading, writing, manipulating, and visualizing
phylogenie s and comparative data in R. [Exercise]

- Models of phenotypic t rait evolution on trees: Brownian
motion. [Lecture]

- Simulating Brownian motion on trees using R. [Exercise]

- Introduction to the phylogenetic comparative method: Phylogenetic
independent contrasts.:-) 60;[Lecture]

- Phylogenetic independent contrasts and exploring the p roperties of
contrasts regression using simulation in R. [Exercise]

- Phylogenetic generalized least squares regression and phylogenetic
ge neralized ANOVA. [Exercise]

Tuesday

- Multivariate s tatistical methods with phylogenies: Phylogenetic
principal components anal ysis, canonical correlation analysis, and
other approaches. [Lecture]< /p>

- Phylogenetic PCA and phylogenetic CCA in R. [Exercise]

- Continuous character models of trait evolution on
phylogenies. [Lectu re]

- Fitting continuous character models to univariate trait data in R. [Exercise]

- Ancestral state reconstruction I: Continu ous
characters. [Lecture]

- Reconstructing ancestral state s for continuous traits on
phylogenies using R. [Exercise]

Wedne sday

- Ancestral state reconstruction II: Discrete characters. [ Lecture]

- Reconstructing ancestral states for discrete traits on phy logenies
using R. [Exercise]

- Exploring the limitations of ance stral state reconstruction for
continuous and discrete characters on phylog enies using
R. [Exercise]

- Testing for the influence of one dis crete character on a second
using Pagel's (1994) method. [Lectur e]

- 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 threshol d
model. [Lecture]

Thursday

- Fitting models of discrete a nd continuous character evolution on
trees using the threshold model. [Exercise]

- Multi-rate, multi-regime, and multivariate models of cha racter
evolution on phylogenies. [Lecture]

- Fitting multi-regim e and multivariate models for continuous
character evolution in - [Exe rcise]

- Visualizing trees and phylogenetic comparative data. [L ecture]

- Plotting phylogenies and comparative data using R. [Ex ercise]

- Wrap-up and optional additional exercise or lecture.

More information and registration
[https://www.transmittingscience.org/cour ses/evolution/using-geiger-phytools-other-computational-tools-study-ma
croev olution-phylogenies/](https://www.transmittingscience.org/courses/evol
ution /using-geiger-phytools-other-computational-tools-study-macroevolution-
phylo genies/)

With best regards

Sole

Soledad De Esteban-Trivig no,PhD.

Scientific Director

Transmitting Science

[ww w.transmittingscience.org](http://www.transmittingscience.org/)
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