Here, we have made some of the EMBO Practical Course: Methods for infectious disease modelling using genomics course's materials available for you to access any time. The last edition of the course ran in September 2025.

This set of materials goes through concepts, methods, and tools for carrying out infectious disease modelling, as well as for developing models further by leveraging the power of genomics.

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Using these materials

These course materials provide a mixture of pre-recorded lectures, presentations and practicals to help advance your knowledge and skills in the analysis of biological data. You may select your topic of interest from the Course content page to view the relevant materials or work your way through all the course materials. 

To find out more about the trainers who created these materials, follow the links from the Course content page or go directly to the Trainer biographies page. You can also find the software requirements for the practicals in the Technical help sheet.

In the Further learning section you may explore the details about the EMBL-EBI’s free access online tutorials and webinars on a variety of life sciences topics.

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Learning outcomes

• Implement, evaluate and adapt deterministic and stochastic transmission models  
• Apply modelling tools to sequence data from epidemics
• Evaluate model fits and forecasts
• Adapt models for pathogen evolution
• Combine phylogenetics and transmission models into phylodynamic models
• Demonstrate a working knowledge of open access data resources of pathogen (sequence) data and mathematical models

Material collection editors

• John Lees, EMBL-EBI
• Sonja Lehtinen, University of Lausanne
• Joel Hellewell, EMBL-EBI
• Leonie Johanna Lorenz, EMBL-EBI
• Lizzie Bridget Divala, EMBL-EBI

DOI: 10.6019/TOL.infectious_disease_modelling-t.2025.00001.1