You mean you want to generate surfaces for your labels? You can generate surfaces using mri_tessellate and mris_smooth will output curv files, but this is not necessarily accurate for arbitrary structures, and I would not recommend relying on them for a study.

doug

Narly A Golestani wrote:

Hi Doug,

The labels are binary (*.ima format, generated with Brainvisa/anatomist). Thanks for suggesting mri_segstats, but I need measures such as mean curvature (and possibly folding), I assume that this function won't give me these?

thanks again, Narly.

On Mon, 28 Sep 2009, Douglas N Greve wrote:

...

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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