Strain resolution – Lecture
Trainer: Chris Quince
Overview: The lecture covers basic concepts of what microbial strains are, the importance of strain-resolutions, resolving stranis from metagenomes. Other concepts covered by this lecture are:
• Clonal expansions, niche selection and mutation will generate structured variation within a species but recombination and migration will dilute it
• Ecologically relevant patterns should be resolvable but not necessarily to actual haplotypes or genomes…
Learning outcomes:
After this session you should be able to:
- List advantages and disavantages of de novo vs reference based strain resolution
- Describe strain resolution from time series – DESMAN
- Describe strain resolution on assembly graphs – STRONG
- Describe validation and exploratory results from long reads
Materials:
Presentation slides (*Note: Please download and open locally as some elements in the file do not load in the browser)