More about deploying

Learn more

https://coderefinery.github.io/reproducible-research/workflow-management/ https://nbis-reproducible-research.readthedocs.io/en/course_2104/snakemake/

Containers

Popular container implementations:

Docker
Singularity (popular on high-performance computing systems)
Apptainer (popular on high-performance computing systems, fork of Singularity)
podman

They are to some extent inter-operable:

podman is very close to Docker
Docker images can be converted to Singularity/Apptainer images
Singularity Python can convert Docker files to Singularity definition files

https://coderefinery.github.io/reproducible-research/environments

Singularity course

October?

Reproducible publications

Git (overleaf, authorea), HackMD, manuscripts.io, google docs
Scholarly output reproducible: rrtools, jupyter, binder, research compendia
Reprohack