Thank you, Douglas.

Best,

Weiqi

________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Greve, Douglas N.,Ph.D. DGREVE@mgh.harvard.edu Sent: Tuesday, July 30, 2019 3:58:20 PM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] FSL questions

I don't know anything about fsleyes or fsl command to extract data. In FS, you can use mri_segstats after resampling the PET to the anatomical space (mri_vol2vol). Use the PET as the --i and the aseg+aparc as the --seg. Alternatively, you could use PETsurfer https://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer PetSurfer - Free Surfer Wikihttps://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer surfer.nmr.mgh.harvard.edu PETSurfer provides a set of tools within FreeSurfer for Partical Volume Correction (PVC) and Kinetic Modeling (MRTM1, MRTM2). While these are typically used for PET analysis, the tools can be used in any context where PVC is needed. PVC methods include the Symmetric Geometric Transfer Matrix (SGTM), two-compartment model (also known as the Meltzer Method), three-compartment model (also known ...

On 7/30/19 1:16 PM, Yang, Weiqi wrote:

Dear FreeSurfers,

I would like to use fsleyes for imaging. Does anybody know how to source it?

And what fsl command I should use if I want to extract all ROIs in aparc+aseg file and get their uptake value from PET image? I know how to do it for a single ROI. I am just wondering if there is an easy way to extract data for all ROIs.

Thanks,

Weiqi

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