Re: [Freesurfer] : cortical thickness ceiling (using an ROI mask)

Hi Kari

the average thickness in some ROIs is 5mm??? Like which ones? That certainly seems like something is wrong. Do the surfaces look accurate? What were the parameters/resolution/sequence of the data you gave to recon-all?

cheers Bruce

On Fri, 3 Jun 2016, Kari Parsons wrote:

Hi,

I'm using ROI masks (spectroscopy voxels) to get cortical thickness values.  I'm pretty much following the tutorial online ('VolumeRoiCorticalThickness') as I'm quite new to Freesurfer.  It looks like Freesurfer has a maximum of cortical thickness ceiling at 5 mm, and I'm getting that as the maximum cortical thickness for a fair number of subject's ROI.  I'd really like to hear thoughts on this: if it might be indicative of some error happening and if my mean or range cortical thickness is going to be thrown off by it?

Thanks for your help, Kari

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