For an upcoming multisite study, primarily anatomical and diffusion data, we have been exploring options to efficiently convert dicoms to BIDS, with dcm2bids being the primary option due to ease of use.
I have a few specific concerns:
- What is an efficient way to deal extract subject IDs from dicom directory names?
We’ve been experimenting with data from two sites, and the naming conventions for each subject dicom folder is quite heterogeneous.
I am thinking this might be mitigated using a subject-key spreadsheet that matches subject IDs with dicom folders.
- The config file for dcm2bids is quite easy to configure. While I anticipate having to update this file for every new site, is there a way to configure it more efficiently? E.g. fitting multiple “SeriesDescription” entries under a single category?
There is also another tool we’re thinking of exploring, heudiconv. The setup is a little more “complicated”; however would it potentially provide more flexibility needed in a multisite study?
Finally, those of you who have experience using BIDS format for multisite studies, what strategies have helped you make the BIDS conversion workflow more efficient?