Dear Douglas,
Thank you for your response. The surface placement on the individual seems correct (see https://ibb.co/f4aeAa ). However, if I load the annotation files, the labels are wrong. In this screenshot (https://ibb.co/cycFiv ), I've loaded the BA annotation outlines and BA3a in yellow on the left hemisphere. It seems to think the wrong fold is the central sulcus.
Thanks,
Daan
Message: 7
Date: Sun, 12 Mar 2017 19:00:21 -0400 From: Douglas Greve greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Faulty alignment to standard surface To: freesurfer@nmr.mgh.harvard.edu Message-ID: 7ab364ef-539f-fd65-4346-db68d915ca05@nmr.mgh.harvard.edu Content-Type: text/plain; charset="windows-1252"
not sure what you mean. Can you send a pic? Is the surface placement on the individual correct (ie, are the white and pial surfaces properly placed on the T1)?
On 3/10/17 11:19 AM, Daan Wesselink wrote:
Dear experts,
I've run the standard recon-all pipeline on a subject, for whom the log does not report any errors and the white and pial surface follow the structural nicely. However, the coregistration to the standard surface has gone wrong: it seems like the central sulcus (e.g. labels BA1, BA3a) is placed on top of the postcentral sulcus.
Does someone know how to fix this problem and/or better identify the step where it went wrong?
Many thanks,
Daan Wesselink
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