Hello, I am trying to use PVE correction on preprocessed PET data downloaded from the Alzheimer's Disease Neuroimaging Initiative(ADNI) database. I have a couple of questions:
1) I am using the co-registered, averaged image of the dynamic images, and it seems from your answers here (https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg43435.html)<https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg43435.html>that for static PET images, #3~5 will be different. Could you explain how I would need to enter the command differently? 2) I already have segmentations of my MRI images obtained via FreeSurfer(v.5.2)'s cortical parcellation. Would I still have to do procedure #1 (gtmeseg --s subject) ? I did try using xcerebralseg because it seemed from the help command that in my case where I already have some FS segmentations that I should use this one: You can use your own segmentation or a modified FS segmentation. It will be easiest if you modify apas+head.mgz to insert your segmentations. apas+head.mgz is created by gtmseg but you can create it with xcerebralseg --s $subject --o $SUBJECTS_DIR/$subject/mri/apas+head.mgz However when I do try I got the following error: ERROR: could not open /usr/local/freesurfer/subjects/002_S_4213/stats/002_S_4213/mri/apas+head.stats for writing Errno: No such file or directory Thanks a lot in advance, Regards, Subin
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