You need to add --save-input (just added a note to the wiki)
On 10/14/2022 9:22 AM, Marina Fernández wrote:
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Dear experts,
I would like to get a noPVC PET volume scaled by the intensity of the pons, then project it and apply standard surface-based analysis. On the PetSurfer website it says:
**
If you do not want to perform PVC, you can just run
mri_gtmpvc --i pet.nii.gz --reg template.reg.lta --seg gtmseg.mgz --default-seg-merge --auto-mask 1.01 --no-tfe --o gtmpvc.output
**
If I do this, I cannot find any output in the folder which I can project on the surface corresponding to the non-PVC PET volume referenced to the pons.
The idea is to have comparable PET-PVC vs. PET-noPVC data scaled to the pons in both cases. In order to do this, should I divide (externally to the mri_gtmpvc function) each voxel of the PET image by the average of the pons?
Thank you very much in advance.
Best regards,
Marina
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