[Freesurfer] clarification - recon-all output data

Stefanie Bradley

12 Apr 2025 12 Apr '25

5:57 p.m.

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Hi there,

I wanted to clarify about the recon-all output: is it in the subject's native space or is everything already mapped to fsaverage space?

For example, is aparc.stats based on the brain in the subject's native space or has the cortical surface already been transformed to fsaverage space, and then stats (ex., cortical thickness) derived after that?

Thanks, Stefanie

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