Week 1
- Onboarding
- Introduction to Slack
- Introduction to Git and GitHub
Week 2
- Introduction to the UNIX commandline
- Introduction to conda
- Shell scripting
Week 3
- Overview of Next Generation Sequencing
- Introduction to bacterial genomics
- QC raw reads and preprocessing
Week 4
- Genome assembly
- Strain typing
- Database querying
- Introduction to python
Week 5
- Phylogenetic analysis
- Introduction to R
Week 6
- Miniproject
Week 7
- Machine learning for bioinformatics
- Nextflow and docker