Yes, you just have to make sure the input and seg volumes are in voxel for voxel alignment

On 2/21/2024 4:30 AM, ERNEST KISSI wrote:

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Hello freesurfer Team,

I have the grey matter segmentation from FSL and I have freesurfer recon-all output but the recon-all outputs do not have regional grey matter intensities. Can I use MRI_segstats to calculate the regional grey matter output using the FSL grey matter segmentation and the recon-all subject hemi parc and subject hemi labels to get the various brain parts and labels for the grey matter?

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