Dear all,

I will really appreciate if you can help me with some issues about editing the pial surface. I have carefully followed the information on the web and looked up the mailing list but I still have the same doubts:

1) I have noticed that pial surface usually includes more than GM (dura, vessels...). My first question is if should we edit this kind of error. Sometimes I am completely sure what I need to correct, but I don't want to put human error in it. Moreover, we will spend to much time with big samples.

2) I have tried to edit the pial surface following the tutorial. After re-running -autorecon2-pial nothing seems to change. The voxels I deleted before are still there and the pial surface looks the same. What could be happening?

3) I have had the same problem with WM edit. After -autorecon2-wm everything remain as before edit.

4) I have read about regenerate the new pial surface with “make_final_surfaces” or from inside recon-all with -finalsurfs. The command could be something like this?

recon-all -s <mysubjectname> -finalsurfs

5) If I need to fix pial and wm lesions in the same subject, do I need to run autorecon2-pial and -autorecon2-wm separately? Can I do it at the same time? And if I could, what command do I have to use?

I hope these are not too much questions. 

Thank you very much in advance.

Daniel Ferreira