I apologize if this has been covered before, but I wanted to make sure I understand the best way to edit at the appropriate times during the longitudinal stream.  

1) Run recon–all –all on each scan

2) If needed, control points are chosen on the individual scans, and recon-all using the -cp option

3) Run the -base processing for the subject

4) WM and brain (pial) edits are done on the base, rerun as needed

5) Final longitudinal processing of each scan

I assume the final processing of the individual scans should need very little manual intervention, since the control points and edits will be carried through to that stage. 

Is this correct, or have I oversimplified or missed something?

Ronald Pierson

Administrative Chair of Imaging, PREDICT-HD
Manager, Research and Development
Department of Psychiatry, Carver College of Medicine
W-278 GH, 200 Hawkins Dr
Iowa City, IA 52242