Chapter 2 Program
The workshop takes place on the 13th and 14th of January from 9am – 5pm (CET). Short breaks will be scheduled between sessions.
The practical sessions consists of a set of example multi-omics analysis workflows. It is assumed that you have already installed the required software. Do not hesitate to ask support from the course assistants.
2.1 Day 1
Lectures
9:15-10:00 - Welcome and introduction - Leo Lahti, Associate professor (UTU)
10:00-10:15 - Break
10:15-11:00 - Metagenomics - Katariina Pärnänen, Postdoctoral researcher (UTU)
11:00-11:15 - Break
11:15-12:00 - Metabolomics - Pande Putu Erawijantari, Postdoctoral researcher (UTU)
12:00-12:15 - Break
12:15-13:00 - Multiomics - Leo Lahti, Associate professor (UTU)
13:00-14:15 - Lunch break
Practical
14:15-17:00 - Tuomas Borman and Chouaib Benchraka, Research assistants (UTU)
Topics:
Data import and data structures
Microbiome data exploration
Visualization
Beta-diversity
R Code:
2.2 Day 2
Lectures
9:15-11:00 (including a short break) - Unsupervised and supervised machine learning - Matti Ruuskanen, Postdoctoral researcher (UTU)
11:00-11:15 - Break
11:15-12:00 - Individual-based modeling - Gergely Boza, Research fellow (CER)
12:00-12:15 - Break
12:15-13:00 - Data integration - Leo Lahti, Associate professor (UTU)
13:00-14:15 - Lunch break
Practical
14:15-17:00 - Tuomas Borman, Matti Ruuskanen and Chouaib Benchraka (UTU)
Topics:
Unsupervised learning: Cross-correlation based biclustering and multi-omics factor analysis
Supervised learning: Regression and classification with random forests
Validation and interpretation of black box models
R Code: