RE: [Freesurfer] more than one edit in the same subject

Hi Antonio,

You only need to run autorecon2 once, and you should choose the option that starts the farthest back in the stream for the edits you did.

For example, autorecon2-cp starts farthest back, then autorecon2-wm, and then autorecon2-pial runs the fewest steps. So, if you've added control points and done any of the additional edits you will need to run autorecon2-cp. If you've done wm edits and pial edits you will need to run autorecon2-wm, and if all you've done are pial edits you will need to run autorecon2-pial.

I hope this makes sense.

Jenni

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From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Gallo, Antonio (NIH/NINDS) [F] Sent: Tuesday, November 21, 2006 4:33 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] more than one edit in the same subject

Dear All,

Since I sometimes need to fix more than one output in the same subject (for example, editing the WM, correcting the pial surface, and adding some control points), I was wondering whether

1) I had to run autorecon2 after each correction;

2) If yes (to the above), should I run autorecon2 in any specific order?

Thanks,

Antonio

Antonio Gallo, MD

NIB-NINDS-NIH

10 Center Drive

Building 10, Room 5B16

Bethesda, MD, 20892 - USA

ph #: 001-301-402.6391

fax #: 001-301-402.0373

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