Schedule
The course will take place in the room Air (see travel info).
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Time | Topic | |
09:00 | Introduction to Reproducible Research (slides) | |
09:45 | Data management and project organization (slides) | |
10:15 | Fika break + surprise | |
10:45 |
Master your dependencies - environments and reproducibility
- Introduction to the package and environment manager Conda (slides) - Practical tutorial: Conda |
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11:30 | Lunch | |
12:30 |
Organize your analysis using workflow managers
- Introduction to Snakemake (slides) - Practical tutorial: Snakemake Fika break ~14:15 |
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16:15 | Wrap-up (slides) | |
16:30 | Free time! | |
17:00 | Joint departure for dinner | |
17:30 | Course dinner | |
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Time | Topic | |
08:30 |
Distributing and version tracking your code
- Introduction to version control and git (slides) - Practical tutorial: Git Computational notebooks - Introduction to Jupyter (slides) - Practical tutorial: Jupyter Fika break ~10:15 |
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11:30 | Lunch | |
12:30 |
Reproducible reports
- Introduction to R Markdown (slides) - Practical tutorial: R Markdown Containerization - Introduction to containers (slides) - Practical tutorial: Docker Fika break ~14:15 |
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16:00 | Wrap-up (slides) | |
16:30 | All done! |
Teachers:
Leif Wigge
John Sundh
Erik Fasterius
Nanjiang Shu
Per Unneberg
Verena Kutschera
Jakub Westholm