As data analysis projects grow and change over time, it gets increasingly difficult to keep track of how the different parts of the data analysis fit together. Workflow management systems such as Snakemake

Links to an external site. can be used to set up, perform and monitor defined sequences of computational tasks ("workflows"), thereby making data analyses reproducible and scalable. Snakemake was developed in the bioinformatics community and has some features that make it particularly well-suited for bioinformatic workflows. The NBIS Tools for reproducible research course is held twice a year and provides both an introduction to Snakemake and a tutorial on how to use it.

This Snakemake BYOC (bring-your-own-code) workshop provides a follow-up to that introduction. Here, participants will get support from experienced bioinformaticians to

A) convert their data analysis from a programming language such as Bash, R or Python into a Snakemake workflow, OR
B) apply more advanced techniques to their existing Snakemake workflows.

Audience Workshop open for PhD students (prioritized), postdocs, researchers and others who have previously participated in the NBIS Tools for reproducible research course or with demonstrated experience in writing Snakemake workflows.

Fee This online training event has no fee. However, if you confirm your participation but do not do so (no-show) you will be invoiced 2,000 SEK. Please note that NBIS cannot invoice individuals.

By accepting to participate in the workshop, you will be agreeing to follow the NBIS Training Code of Conduct.

Due to limited space, the workshop can accommodate a maximum of 12 participants. If we receive more applications, participants will be selected based on several criteria. Selection criteria include correct entry requirements, motivation to attend the workshop as well as gender- and geographical balance.

This is a national workshop. The workshop is open for PhD students, postdocs, group leaders and core facility staff. We do accept applications from other countries, but give priority to applicants from Swedish universities prior to applicants from industry and academics from other countries.

Please note that NBIS training events do not provide any formal university credits. The training content is estimated to correspond to a certain number of credits; however, the estimated credits are just guidelines. If formal credits are crucial, the student needs to confer with their home department before submitting a workshop application in order to establish whether the workshop is valid for formal credits or not.