Dear fmriprep fellows,
I was wondering to which stage arrives fmriprep with Freesurfer “recon-all” and how I could use the outputs from Freesurfer from fmriprep to use them in further analysis with Freesufer.
Best,
Rosalia
Dear fmriprep fellows,
I was wondering to which stage arrives fmriprep with Freesurfer “recon-all” and how I could use the outputs from Freesurfer from fmriprep to use them in further analysis with Freesufer.
Best,
Rosalia
fMRIPrep runs all of FreeSurfere 6.0.1’s recon-all, with the exception of injecting a brain mask that is calculated by ANTs. The result should be usable in any workflow that assumes a normal FreeSurfer reconstruction.
Hi,
This includes tables with stats?
Thank you,
Rosalia
I assume you’re talking about segstats and parcstats? Yes, those steps are run.
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