What is the form of the label? Ie, freesurfer .label files or binary volumes with voxel value=1 in the label and 0 else? Or segmentation volume where voxel val = index? If a binary or segmentation, you can run mri_segstats. I don't think you need to run recon-all on your average.
doug
Narly A Golestani wrote:
Dear all,
I have some 3-D volumes (labelled regions of interest) generated manually on *normalised* structural images.
I would like to use freesurfer to run the anatomical_stats command on these volumes. Is this possible? These labels (volumes) were not generated using freesurfer. Can I transform them into the required format for this purpose? I assume I'll also have to run recon_all on the *normalised* T1s in order to have the measures needed for this?
thanks in advance for any input you might have, best wishes, Narly.
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