Hi,

I had a question regarding how FreeSurfer handles high-resolution MRI scans. I understand that it typically accepts isotropic 1 mm scans (and up to 1.5 mm). I wanted to confirm whether using the -hires flag alone is sufficient for processing this type of data, and if there are any additional considerations I should be aware of when reviewing the outputs.

I’m using v8.0.0. and working with a dataset acquired at 0.5 × 0.5 × 1 mm resolution. I used the -hires flag with recon-all, and FreeSurfer preserved the resolution and resampled it to isotropic 0.5 mm voxels.

Also, does using high-resolution data affect the alignment or reliability of atlas-based parcellations (like Desikan-Killiany), given that those templates were originally developed on standard-resolution scans?

Thank you for your help.

Best