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. Author manuscript; available in PMC: 2023 May 7.
Published in final edited form as: Neuroimage. 2022 Sep 3;263:119609. doi: 10.1016/j.neuroimage.2022.119609

Fig. 1. CuBIDS workflow.

Fig. 1.

The CuBIDS workflow begins after the generation of NIfTI files and JSON sidecars and ends directly before the execution of pre-processing pipelines. We start with a BIDS dataset, which can be validated using CuBIDS’ robust version of the BIDS-validator. After purging the dataset of any sensitive fields, users can move to the next workflow stage: detecting Parameter Groups. Users can then rename or delete Parameter Groups. At any point in the workflow, users can implement version control to track changes made to the data using an easy-to-use, wrapped version of DataLad. Finally, users test one Exemplar Subject from each Acquisition Group on BIDS Apps to ensure each set of scanning parameters can run through pipelines error-free. CuBIDS includes command line programs for each step of the workflow (see Table 1).