Structure
In total, the course is designed to take 2 weeks of face time. The course is designed as an instructor led course with the following components:
Theme 1:
- Intro, Getting started with programming (UNIX/python): 2 days
Theme 2:
- Wetlab protocols, sequencing technologies (Illumina, nanopore), raw-data QC: 1 day
- Genome assembly (de novo: short-read, long-read and hybrid) and QC: 1,5 days
- Genome analysis (blast, in silicone MLST, annotation, phylogenetics, lineage assignment, outbreak analysis, AMR ): 2,5days
- Data sharing (Public repositories, ECDC toolbox): 1 day
- Pipeline development/automation: 1 day
- Large-scale automation (incl. site-visit), further learning/resources, wrapping up and course evaluation: 0,5 day
Theme 5:
- How to keep learning, Q and A with course trainers: 0,5 day
Last modified: Wednesday, 24 April 2024, 1:38 PM