Course schedule

Day 1 - Molecular evolution and phylogenetics

Timings	Activities
9:00 - 9:30	Welcome, Introductions
9:30 - 10:00	Lecture: Overview, objectives, motivation, concept of orthologs, HOGs
10:00 - 10:45	Module 1: Genes, groups, and genomes in the OMA Browser
10:45 - 11:15	Coffee break
11:15 - 11:25	Go over results
11:25 - 11:30	Lecture: introduce OMAmer
11:30 - 11:55	Module 2: Fast placement with OMAmer
11:55 - 12:00	Go over results
12:00 - 12:10	Lecture: FastOMA
12:10 - 12:30	Module 3 part 1: FastOMA (launch it before lunch)
12:30 - 13:30	Lunch
13:30 - 14:00	Module 3 part 2: FastOMA
14:00 - 14:15	Go over results
14:15 - 14:30	Lecture: Gene trees and species trees
14:30 - 15:00	Coffee Break
15:00 - 16:00	Module 4: Building Species Trees
16:00 - 16:15	Go over results
16:15 - 16:45	OMA Clinic
16:45 - 17:00	Wrap-up & Open Q&A

Timings	Activities
09:00 - 10:15	Introductory Lectures - Orthology & BUSCO
10:15 - 10:30	Introduction to the Hands-On & Setting up Workspaces
10:30 - 11:00	Coffee Break
11:00 - 12:00	Practical Exercise 1 - BUSCO
12:00 - 13:00	Lunch Break
13:00 - 13:45	Practical Exercise 2 - OrthoDB & Species Trees
13:45 - 14:30	Practical Exercise 3 - Gene-Tree-Species-Tree Reconciliation
14:30 - 15:00	Coffee Break
15:00 - 15:45	Case Studies Lectures
15:45 - 16:30	Practical Exercise 4 - Gene Family Ancestral State Reconstruction
16:30 - 17:00	Wrap-up & Open Q&A

Timings	Activities
09:00 - 10:00	Lecture 1 - Function in model vs non-model organisms
10:00 - 10:30	Coffee Break
10:30 - 11:30	Practical Exercise 1 - Finding information about gene function at small scale
11:30 - 12:30	Lecture 2 - Finding function information at large scale
12:30 - 13:30	Lunch Break
13:30 - 14:45	Practical Exercise 2 - Finding information about gene function of a group of genes
14:45 - 15:15	Coffee Break
15:15 - 16:00	Lecture 3 - Gene and genome duplication
16:00 - 17:00	Practical Exercise 3 - Function of duplicated genes