Analysis Workflows, Derivatives, and BIDS Apps
Analysis Workflows, Derivatives, and BIDS Apps
This session moves from BIDS basics into analysis workflows, focusing on how to turn raw, BIDS-organized data into derivatives using BIDS Apps and containers for reproducible processing. It compares end-to-end pipelines across fMRI and PET (and notes EEG/MEG), explains typical preprocessing choices, and shows how standardized inputs plus containerized tools (Docker/AppTainer) yield consistent, auditable outputs.
Topics covered in this lesson
- BIDS apps overview
- Workflows by modality
- Derivatives in BIDS
- Tooling landscape
- Querying data
- Containers for reproducibility
- Scaling and robustness
- Performance optimizations
- Data access patterns
- Good practices
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