Hi Bruce, thanks for your reply. As far as I can tell the cps are in the WM. I'd be grateful if you could take a closer look, though. You can download the dataset here: https://bigmail.cbs.mpg.de/i/2581030103b072173ff426e67d298cf4.zip
Cheers, Clara ----- Ursprüngliche Mail ----- Von: "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> An: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu> Gesendet: Montag, 29. Juni 2015 18:07:28 Betreff: Re: [Freesurfer] too much white matter Hi Clara are you sure you put the control points in the interior of the WM? If you want to upload the subject we will take a look cheers Bruce On Mon, 29 Jun 2015, Clara Kühn wrote: > Dear Freesurfer experts, > > I've had this problem now a couple of times: after setting a few (in this > case 2) control points and rerunning the recon-all process with the -cp flag > I get huge areas of white matter including the subcortical areas and lots of > the cortical ribbon. See attached picture. > Could you explain how this happens because the logfile says it ran without > error. In these cases I've deleted the whole thing and preprocessed the scan > from scratch. I was wondering if there's a better way to deal with this like > going a step back if that's possible. > > Cheers, > Clara Kühn > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
