Apologies if this is a repeat topic, but I couldn’t find anything in a search. Is there a protocol for removing unneeded scans (e.g., aborted functional runs, bad T1’s, etc.) from a bids directory?
We are set up to have all DICOM series transferred from a central server to our analysis server and automatically converted into bids format. This means that all data are converted into bids format, even for runs that we do not want. We are specifically running into problems where a subject has had multiple re-takes of a T1-scan. We would like to remove the bad runs so that fmriprep only uses the good run during the preprocessing of the functional data, however, just removing the bad runs from the bids folder (not deleting, just relocating to a directory outside the bids directory) still results in fmriprep trying to process these bad runs.
Any suggestions would be appreciated.