bacpop (bacterial population genomics & modelling)
We are the Pathogen Informatics and Modelling group at EMBL-EBI (also known as the Lees Group).
We currently have two main lines of research: understanding the mechanisms of microbial evolution, and developing methods and resources that lower the barrier to entry for infectious disease genomics and modelling.
We use the following methods to address these questions:
- Mathematical modelling of pangenome dynamics
- k-mer sketching and indexing
- Forward simulation of complex molecular and evolutionary processes
- Deep learning on gene, protein and DNA sequences
- GPU and multicore algorithms
- Lightweight algorithm development
For more information about these areas, see our research.
Find out more
To learn who we are and who we work with, see about us. Current vacancies are listed under working with us.
For more about our tools and methods, we have collated information on the software page, and you can also see our code on github.
Databases and training course materials can be found under resources.
Guides and blog posts
We publish sample workflows and recommendations for common population genomics workflows in our guides.
Other posts, such as paper summaries, reviews and short how-to guides can be found on our blog.
