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Hi Doug,
I am sure that the anatomical and PET come from the same subject. And I am using the same processing procedures as worked well on other 7 subjects. So I don't think it is because of processing or mixing data.
According to the co-registered result, The skull in PET image is wider than the anatomical image but the ventricle part seemed OK. I have to manually change the x scale in PET image from 1 to 0.925 to match the anatomical image.
I can certainly manually change the registration in tkregisterfv but it would be more satisfying to understand why it is going awry. And suggestions?
Thanks, Vicky
On Mon, Oct 7, 2019 at 11:21 AM Greve, Douglas N.,Ph.D. < DGREVE@mgh.harvard.edu> wrote:
You can manually change the registration in tkregisterfv. But we rarely see this happen and I'm wondering if it might be some other problem. Are you totally sure that the anatomical and PET come from the same subject?
On 10/3/2019 12:59 PM, Vicky Yang wrote:
External Email - Use CautionHi Doug,
Thanks for your respond! I ran the the command with debug flag and figured out the problem. It is because I use a space in the name of the PET data directory. After removing the space character, tkregisterfv works great!
But one PET image didn't register well with T1. Is there any way to improve the registration?
Thanks again for your time! Regards, Vicky
On Wed, Oct 2, 2019 at 5:36 PM Greve, Douglas N.,Ph.D. < DGREVE@mgh.harvard.edu> wrote:
Can you run tkregisterfv --debug --mov pet.nii.gz --targ T1.nii --reg pet_T1.reg.lta and send the terminal output?
On 10/2/2019 3:58 PM, Vicky Yang wrote:
External Email - Use CautionDear Freesurfer experts,
I used mri_coreg to register my pet data to T1 like below:
mri_coreg --mov pet.nii.gz --ref T1.nii --reg pet_T1.reg.ltaAfter coregistering, I checked the registration using tkregisterfv like below:
tkregisterfv --mov pet.nii.gz --targ T1.nii --reg pet_T1.reg.ltaHowever, the command didn't work with an error: if: Expression Syntax.
Any suggestions would be appreciated. Thank you in advance for your help.
Sincerely, Vicky
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