Building Modular and Automated Analysis Workflows

This unit introduces strategies for developing modular and automated workflows using Jupyter notebooks. Participants learn how to structure notebooks into reusable components by defining functions, storing configuration values, and importing code across notebooks to streamline complex analyses. The unit also covers automation techniques using Papermill, demonstrating how to execute parameterized notebooks from the command line and batch process analyses across datasets. Together, these practices support scalable, reproducible, and maintainable research workflows.