Hi,

I created a triangular mesh of a marmoset cortex (layer 4) from histological slices. Although the marmoset cortex is almost flat, it does have a very deep calcarine sulcus and I need to push it out. I am hoping that it is possible to feed the mesh to FreeSurfer so that it can be flattened. I have no need for the GUI or any visualization. All I need is a flattened representation of the mesh. Can anyone provide some hints about how I should begin?

The documents for mris_inflate and mris_flatten are pretty sparse. I imagine that if I can save my mesh in the format that FreeSurfer uses, I will be able to use the two command line tools to flatten. Does that seem sensible? Any other processing/commands should be involved?

Thank you.

Hsin-Hao Yu