Collections of computational notebooks often lose coherence as projects grow. Scikick is a command line utility for managing this growth with simple commands for workflow configuration, report generation, and state management.

Figure 1b from Carlucci M. et al, 2023.

Scikick is currently tested on Unix systems (i.e. macOS, Linux etc.) and can be installed with:

pip install scikick

Initializing a Scikick project with sk init will create a scikick.yml file and identify any further missing software requirements.

Read the introduction for further details and installation requirements.

See the tutorial for a simple example usage of Scikick.

View a data analysis report generated by Scikick.

Use the issue board to provide feedback on Scikick (feature requests, bugs, and further software-related comments).

See further discussion about Scikick in the accompanying article:

Carlucci M, Bareikis T, Koncevičius K, Gibas P, Kriščiūnas A, Petronis A, et al. (2023) Scikick: A sidekick for workflow clarity and reproducibility during extensive data analysis. PLoS ONE 18(7): e0289171. https://doi.org/10.1371/journal.pone.0289171