| Time |
Topic |
Instructor |
25-Nov-2024MonStockholm |
| 09:00 |
Setting up and troubleshooting installations |
|
| 10:00 |
Introduction to Reproducible Research |
Erik Fasterius |
| 10:25 |
Break |
|
| 10:40 |
Data management and project organisation |
John Sundh |
| 11:10 |
Version tracking and distributing your code |
Erik Fasterius |
| 12:00 |
Lunch |
|
| 13:00 |
… continued: Git |
|
| 14:40 |
Break |
|
| 15:00 |
Controlling your environment with Conda |
John Sundh |
| 16:45 |
Wrap-up day 1 |
Erik Fasterius |
26-Nov-2024TueStockholm |
| 09:00 |
Organise your analyses using workflow managers: Snakemake |
John Sundh |
| 10:20 |
Break |
|
| 10:40 |
… continued: Snakemake |
|
| 12:00 |
Lunch |
|
| 13:00 |
… continued: Snakemake |
|
| 14:40 |
Break |
|
| 15:00 |
Organise your analyses using workflow managers: Nextflow |
Erik Fasterius |
| 16:45 |
Wrap-up day 2 |
John Sundh |
| 18:00 |
Course dinner |
|
27-Nov-2024WedStockholm |
| 09:00 |
… continued: Nextflow |
|
| 10:20 |
Break |
|
| 10:40 |
… continued: Nextflow |
|
| 12:00 |
Lunch |
|
| 13:00 |
Writing computational notebooks and reproducible reports: Quarto |
Erik Fasterius |
| 14:30 |
Break |
|
| 14:50 |
… continued: Quarto |
|
| 15:20 |
Writing computational notebooks and reproducible reports: Jupyter |
John Sundh |
| 16:45 |
Wrap-up day 3 |
Erik Fasterius |
28-Nov-2024ThuStockholm |
| 09:00 |
… continued: Jupyter |
|
| 09:45 |
Working with containers |
John Sundh |
| 10:30 |
Break |
|
| 10:50 |
… continued: Containers |
|
| 12:00 |
Lunch |
|
| 13:00 |
… continued: Containers |
|
| 14:20 |
Break |
|
| 14:40 |
… continued: Containers |
|
| 16:45 |
Wrap-up day 4 |
John Sundh |
29-Nov-2024FriStockholm |
| 09:00 |
Putting it all together |
Erik Fasterius |
| 10:20 |
Break |
|
| 10:40 |
… continued: Putting it all together |
|
| 12:00 |
Lunch |
|
| 13:00 |
… continued: Putting it all together |
|
| 14:20 |
Break |
|
| 14:40 |
… continued: Putting it all together |
|
| 15:45 |
Final wrap-up and end of the course |
John Sundh |
Date Venue Slides Lab Video