The following topics and tools are covered in the course:

Data management
Project organisation
Git
Conda
Snakemake
Nextflow
R Markdown
Jupyter
Docker
Singularity

At the end of the course, students should be able to:

Use good practices for data analysis and management
Clearly organise their bioinformatic projects
Use the version control system Git to track and collaborate on code
Use the package and environment manager Conda
Use and develop workflows with Snakemake and Nextflow
Use R Markdown and Jupyter Notebooks to document and generate automated reports for their analyses
Use Docker and Singularity to distribute containerized computational environments