Dear Freesurfers,
I was wondering if you could help me clarify one question I have re the recommended use of bbregister to register PET data.
If I want to register my PET data to MNI305 space used in Freesurfer, is a 6 dof rigid registration enough? I notice that the tailarach function used within autorecon1 is a 12 dof affine, so I'm guessing that bbregister is unlikely to fully register the PET data to the template space in the same way that (eg) brain.mgz is registered.
Thank you very much!
Best,
Joao Pereira
Hi Joao
You are registering to that subject's anatomicals, not a template, so 6 should be enough Cheers Bruce On Jul 7, 2011, at 6:43 AM, Joao Pereira jmsp2@wbic.cam.ac.uk wrote:
Joao
The conversion from PET to MNI305 uses two registration steps. One from PET to anatomical, one from anat to mni305. bbregister handles the first one, so 6 dof is fine. doug
Joao Pereira wrote:
Dear Freesurfers,
I was wondering if you could help me clarify one question I have re the recommended use of bbregister to register PET data.
If I want to register my PET data to MNI305 space used in Freesurfer, is a 6 dof rigid registration enough? I notice that the tailarach function used within autorecon1 is a 12 dof affine, so I'm guessing that bbregister is unlikely to fully register the PET data to the template space in the same way that (eg) brain.mgz is registered.
Thank you very much!
Best,
Joao Pereira
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dear all, I created a 3-frame image using a command similar to: mris_preproc --target fsaverage --hemi lh --fwhm 5 \ --out xrun/lh.cope1.mgh \ --iv fbert1.feat/stats/cope1.nii.gz fbert1.feat/reg/freesurfer/anat2exf.register.dat \ --iv fbert2.feat/stats/cope1.nii.gz fbert2.feat/reg/freesurfer/anat2exf.register.dat
How can I view all 3 frames of the lh.cope1.mgh? I see just one frame with: tksurfer fsaverage lh inflated -overlay xrun/lh.cope1.mgh And don't know how to toggle between the frames.
Thank you for your help!
Cheers, Aga
Hi Aga, try View->Configure->Overlay. The config window will have a time point entry at the top. doug
Agnieszka Burzynska wrote:
Dear all, I created a 3-frame image using a command similar to: mris_preproc --target fsaverage --hemi lh --fwhm 5 \ --out xrun/lh.cope1.mgh \ --iv fbert1.feat/stats/cope1.nii.gz fbert1.feat/reg/freesurfer/anat2exf.register.dat \ --iv fbert2.feat/stats/cope1.nii.gz fbert2.feat/reg/freesurfer/anat2exf.register.dat
How can I view all 3 frames of the lh.cope1.mgh? I see just one frame with: tksurfer fsaverage lh inflated -overlay xrun/lh.cope1.mgh And don't know how to toggle between the frames.
Thank you for your help!
Cheers, Aga
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dear Doug, Yes, it works, thank you so much! Cheers, Aga
On 7/7/11 3:57 PM, "Douglas N Greve" greve@nmr.mgh.harvard.edu wrote:
Hi Aga, try View->Configure->Overlay. The config window will have a time point entry at the top. doug
Agnieszka Burzynska wrote:
Dear all, I created a 3-frame image using a command similar to: mris_preproc --target fsaverage --hemi lh --fwhm 5 \ --out xrun/lh.cope1.mgh \ --iv fbert1.feat/stats/cope1.nii.gz fbert1.feat/reg/freesurfer/anat2exf.register.dat \ --iv fbert2.feat/stats/cope1.nii.gz fbert2.feat/reg/freesurfer/anat2exf.register.dat
How can I view all 3 frames of the lh.cope1.mgh? I see just one frame with: tksurfer fsaverage lh inflated -overlay xrun/lh.cope1.mgh And don't know how to toggle between the frames.
Thank you for your help!
Cheers, Aga
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Agnieszka Burzynska -
Bruce Fischl -
Douglas N Greve -
Joao Pereira