I think you could just load the cortex.label map onto the surface and
edit those regions out. Then they will not contribute to smoothed maps,
etc... Doug: any reason this wouldn't work?
On Tue, 13 Feb 2018, James Hobart wrote:
> Hi all,
> I am looking to mask out a small region of the GM when calculating the
> cortical thickness of ROIs
> across the brain. Essentially I have a couple of cases with small GM lesions
> where the cortical
> thickness is less likely to be meaningful for my analysis.
> I have binary lesion masks and also full recon-all s for these cases. I was
> thinking I would need to
> mask the cortical thickness map somehow (potentially mapping the mask volume
> to a surface?) before
> using the mris_anatomical_stats to calculate cortical thickness.
> Is this the best way to go about this?
> Many thanks
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