Hello PetSurfer and Freesurfer Developers, I am using PetSurfer to obtain PVC SUVR images . I have already used mri_concat to derive the mean images over three acquisitions (template image).
After gtmseg amd mri_coreg, I want to get the SUVR map with whole cerebellum as the reference (instead of the pons). How could this be done? What can I modify in mri_gtmpvc --i pet.nii.gz --reg template.reg.lta --psf FWHM --seg gtmseg.mgz --default-seg-merge --auto-mask PSF .01 --mgx .01 --o gtmpvc.output to achieve this goal? Thank you.
add --rescale 7 8 46 47
these are the ids for left and right cblum wm and gm
On 04/28/2017 06:13 AM, Shane Schofield wrote:
Hello PetSurfer and Freesurfer Developers,
I am using PetSurfer to obtain PVC SUVR images . I have already used mri_concat to derive the mean images over three acquisitions (template image).
Inline image
After gtmseg amd mri_coreg, I want to get the SUVR map with whole cerebellum as the reference (instead of the pons). How could this be done? What can I modify in mri_gtmpvc --i pet.nii.gz --reg template.reg.lta --psf FWHM --seg gtmseg.mgz --default-seg-merge --auto-mask PSF .01 --mgx .01 --o gtmpvc.output to achieve this goal?
Thank you.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Doug, Great, thanks for the speedy help. If I use --save-input, will I be using the input.rescaled.nii.gz as the partial volumed corrected SUVR maps for surface-based comparisons with mri_glmfit ? On Friday, April 28, 2017 11:06 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
add --rescale 7 8 46 47
these are the ids for left and right cblum wm and gm
On 04/28/2017 06:13 AM, Shane Schofield wrote:
Hello PetSurfer and Freesurfer Developers,
I am using PetSurfer to obtain PVC SUVR images . I have already used mri_concat to derive the mean images over three acquisitions (template image).
Inline image
After gtmseg amd mri_coreg, I want to get the SUVR map with whole cerebellum as the reference (instead of the pons). How could this be done? What can I modify in mri_gtmpvc --i pet.nii.gz --reg template.reg.lta --psf FWHM --seg gtmseg.mgz --default-seg-merge --auto-mask PSF .01 --mgx .01 --o gtmpvc.output to achieve this goal?
Thank you.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
that will not be PVCed (it is just the input rescaled by the reference). If you want a volume, then you'll have to use the muller-gartner output (--mgx flag)
On 4/29/17 8:22 AM, Shane Schofield wrote:
Hi Doug,
Great, thanks for the speedy help.
If I use --save-input, will I be using the input.rescaled.nii.gz as the partial volumed corrected SUVR maps for surface-based comparisons with mri_glmfit ?
On Friday, April 28, 2017 11:06 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
add --rescale 7 8 46 47
these are the ids for left and right cblum wm and gm
On 04/28/2017 06:13 AM, Shane Schofield wrote:
Hello PetSurfer and Freesurfer Developers,
I am using PetSurfer to obtain PVC SUVR images . I have already used mri_concat to derive the mean images over three acquisitions (template image).
Inline image
After gtmseg amd mri_coreg, I want to get the SUVR map with whole cerebellum as the reference (instead of the pons). How could this be done? What can I modify in mri_gtmpvc --i pet.nii.gz --reg template.reg.lta --psf FWHM --seg gtmseg.mgz --default-seg-merge --auto-mask PSF .01 --mgx .01 --o gtmpvc.output to achieve this goal?
Thank you.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Douglas Greve -
Douglas N Greve
-
Shane Schofield