Data organization

Nipoppy docs are moving

Nipoppy is undergoing a major refactor to move from scripts to a command-line interface (CLI) and Python API. The new documentation website (work in progress) can be found at https://nipoppy.readthedocs.io/.

If you are using the (soon-to-be legacy) scripts from Nipoppy 0.1.0, this is still the correct place to be. But we encourage you to check out the new website!

Data organization

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An Nipoppy dataset consists of a specific directory structure to organize MRI and tabular data.

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Directories:

• tabular
  • contains manifest.csv
  • demographics: contains demographic data (e.g. age, sex)
  • assessments: contains clinical assessments (e.g. MoCA)
• downloads: data dumps from remote data-stores (e.g. LONI)
• scratch: space for un-organized data and wrangling
• dicom: participant-level dicom dirs
• bids: BIDS formatted dataset
• derivatives: output of processing pipelines (e.g. fmriprep, mriqc)
• proc: space for config and log files of the processing pipelines
• backups: data backup space (tars)
• releases: data releases (symlinks)