I don't know what the Brainnetome is, but it looks like you have it in annotation form. I think that command should work. Why are you using --no-xcerseg? This will cause it to not include extracerebral structures. Also note that you cannot use arbitrarily small segments when doing PVC.
On 8/13/19 10:26 AM, Boris Rauchmann wrote:
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Dear all,
my intention is to use the Brainnetome Atlas parcellation/segmentation in PETSurfer to obtain PVC corrected SUVRs for the atlas ROIs. I used:
gtmseg --s XYZ --o BN.gtmseg.mgz --ctx-annot BN_Atlas.annot --ctab '/media/XYZ/BN_Atlas_freesurfer/BN_Atlas_246_LUT.txt' --no-xcerseg
Is this the right approach to obtain a high resolution segmentation to run PVC methods?
Thanks, Boris
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