I’m sorry if this has already been asked somewhere.
How/can I run fmriprep without having to rerun freesurfer if I already have surfaces for my participants? I have two use cases for this:
- re-running the functional processing with different parameters
- working with freesurfer outputs from the HCPPipelines…
It sounds (from some other threads) like this is possible, but we are having trouble figuring it out the command-line args for it from the docs.