External Email - Use Caution
Greetings freesurfuer community,
I've been working on a research project for which I need to simulate different levels of inflation for a given brain MRI, to achieve so I have tried the following so far:
1. To run recon-all for a test subject 2. To run mris_inflate over pial surfaces (as that's the structure I need for my simulation) 3. To try to get back to a .nifti file by using mri_surf2vol. However I have been unsuccessful with this step as the required --ribbon parameter refers to ribbon.mgz which is a binary mask of segmented tissue. My question: is there a way for me to generate a ribbon.mgz with the inflated brain, or does anyone know how to get an inflated version of the brain that I can use as an actual volume / image (.nifti, .mgz...)?
Thanks in advance!
I'm not sure what a ribbon for the inflated surface would look like. You can try mri_surfacemask to create a binary volume of everything inside the surface.
On 10/14/2021 7:47 PM, Nicolas Munera Garzon wrote:
External Email - Use Caution
Greetings freesurfuer community,
I've been working on a research project for which I need to simulate different levels of inflation for a given brain MRI, to achieve so I have tried the following so far:
- To run recon-all for a test subject
- To run mris_inflate over pial surfaces (as that's the structure I need for my simulation)
- To try to get back to a .nifti file by using mri_surf2vol. However I have been unsuccessful with this step as the required --ribbon parameter refers to ribbon.mgz which is a binary mask of segmented tissue. My question: is there a way for me to generate a ribbon.mgz with the inflated brain, or does anyone know how to get an inflated version of the brain that I can use as an actual volume / image (.nifti, .mgz...)?
Thanks in advance!
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