CAPSLink

CAPS (ClinicA Processed Structure) is the BIDS-inspired output structure of Clinica pipelines.

MotivationLink

The BIDS specifications currently do not provide specific rules for the processed data, so the goal of CAPS (designed by the AramisLab is to define a hierarchy for the Clinica processed data. The idea is to include in one folder all the results of the several pipelines and organize the data following the main patterns of the BIDS specification.

Note: There is an ongoing initiative called BIDS-derivatives that aim to provide a BIDS standard for processed data. However, in its current state, it was not well adapted to Clinica outputs. This is why Clinica has its own specifications called CAPS.

General overviewLink

<Datatasetname>_CAPS/
├── subjects/
│   ├── regional_measures/    
│   ├── sub-<subject_label>/
│   │   ├── ses-<session_label>/
│   │   │   ├── pet/
│   │   │   └── t1/
│   │   │       ├── freesurfer_cross_sectional/
│   │   │       ├── fsl/
│   │   │       └── spm/
│   │   ├── ses-<session_label>/
│   │   │   └── ...
│   │   └── ...
│   ├── sub-<subject_label>/
│   └── ...
└── groups/
    ├── group-<group_label>/
    │   ├── group-<group_label>_subjects_visits_list.tsv
    │   ├── statistics/
    │   └── t1/
    │       └── spm/
    └── ...

This is just a general overview of the CAPS structure. For detailed information, please see the document The ClinicA Processed Structure (CAPS) Specification.