Dear FreeSurfer gurus, I have T1 scans of a patient at three different time-points (one run at each time-point). The cortical reconstructions of the first and third time-points seem to have worked reasonably well, but the reconstruction of the second time-point was a disaster. A massive part of the frontal lobe (bilaterally) is cut out from the wm and gm surfaces. I tried fixing this with wm edits, but that exited with errors, then I tried to add control points to the new wm.mgz and recon-all again exited with errors. Is there any possibility of saving this scan? Would I be able to upload some screenshots to help you see what is going on?
Many thanks in advance, Sean
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