Re: [Freesurfer] PETsurfer kinetic modeling

There is not an easy way to do this yet. If you have your segmentations in the conformed anatomical space, you can merge them with gtmseg.mgz with something like mri_vol2vol --interp nearest --mov yoursegs.mgz --targ gtmseg.mgz --o yoursegs-in-gtmseg-space.mgz mergeseg --src gtmseg.mgz --merge y

[Freesurfer] PETsurfer kinetic modeling

External Email - Use Caution Congratulations to the FreeSurfer team in the continued progress made in the FS tool set. I wondered if you could comment on whether it is feasible to create a custom reference region (other than specifying, for example, cerebellar cortex or another

Re: [Freesurfer] petsurfer Kinetic Modeling (MRTM1, MRTM2)

On 2/22/19 1:47 PM, john Anderson wrote: External Email - Use Caution Hi Dr Greve, Yes, in my lab we normalize DPA713 tracer to whole brain mean using the command fslmaths something like fslmaths pet.nii -mask mask -inm 1 pet_normalized_whole_brain.nii.gz For kinetic modeling.. kind

Re: [Freesurfer] petsurfer Kinetic Modeling (MRTM1, MRTM2)

External Email - Use Caution Hi Dr Greve, Yes, in my lab we normalize DPA713 tracer to whole brain mean using the command fslmaths something like fslmaths pet.nii -mask mask -inm 1 pet_normalized_whole_brain.nii.gz For kinetic modeling.. kindly I would like to be sure that I go

Re: [Freesurfer] petsurfer Kinetic Modeling (MRTM1, MRTM2)

On 2/22/19 11:43 AM, john Anderson wrote: External Email - Use Caution Dear Dr Greve, Thank you so much for the response! Indeed, I used MRTM2 for HB pathological regions and the results were very confusing Based on your response bellow, I understand that for pathological regions

Re: [Freesurfer] petsurfer Kinetic Modeling (MRTM1, MRTM2)

External Email - Use Caution Dear Dr Greve, Thank you so much for the response! Indeed, I used MRTM2 for HB pathological regions and the results were very confusing Based on your response bellow, I understand that for pathological regions I can feed "bp.nii.gz" files from "

Re: [Freesurfer] petsurfer Kinetic Modeling (MRTM1, MRTM2)

On 2/22/19 7:58 AM, john Anderson wrote: External Email - Use Caution Hi Dr Greve, I would like to use petsurfet to do kinetic modeling (KM), the pipeline is straightforward and easy to use. Thank you so much! I would appreciate any clarifications relevant to my questions bellow: 1) I

[Freesurfer] petsurfer Kinetic Modeling (MRTM1, MRTM2)

External Email - Use Caution Hi Dr Greve, I would like to use petsurfet to do kinetic modeling (KM), the pipeline is straightforward and easy to use. Thank you so much! I would appreciate any clarifications relevant to my questions bellow: 1) I understand that the flag "--km-ref"