Hi Isaac

You can use tools like mri_and mri_or to generate results, or use the FSL tools, either way is fine Bruce

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of I. Kelleher-Unger Sent: Thursday, September 30, 2021 10:38 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Fill between two surfaces

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Hi Bruce,

Thanks for your quick reply!

mri_ribbon is exactly what I was looking for! Thanks for your help on that.

Ultimately I want to find the overlap between the output of mri_ribbon and an atlas ROI.

Is there a tool in freesurfer for this (preferred option to keep within the same ecosystem) or would I be best off using something like fslmaths with the -mas flag?

Thanks again for your help! Isaac

On 30 Sep 2021, at 3:19 pm, Fischl, Bruce BFISCHL@MGH.HARVARD.EDU wrote:

Hi Isaac

Yes, you can use mris_fill on the two surfaces, then intersect the resulting volumes. We use the binary mri_ribbon that does this for you, you can try that out instead if you want.

Cheers Bruce

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of I. Kelleher-Unger Sent: Thursday, September 30, 2021 9:38 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Fill between two surfaces

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Hi there,

Apologies if this is a basic question: I have two surfaces and I would like to make a ribbon/mask of the area between the surfaces. How could I go about this? Is mris_fill the right tool to use?

Thanks for your help! Isaac

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