Hi,
I've run the standard recon-all processing stream on a subject with a fairly large (~ few cms) focal cortical dysplasia near the central sulcus. On the MR scan the intensity's somewhere between gm & wm, although it is clearly visible. The wm surface has pretty much missed the whole thing though.
I was wondering if there are any parameters I can adjust to potentially improve sensitivity to this kind of pathology? I can send some images if that helps.
Thanks Heath
freesurfer@nmr.mgh.harvard.edu