Hi all,
I wonder if people have any data (or anecdotes - I'm not picky) with regard to how high of resolution T2w or FLAIR images need to be in order to be useful for FreeSurfer's pial refinement. I've seen a couple threads suggesting the optimal is ~1mm isotropic, and that thick slice (1x1x5 mm^3) FLAIR images could be tried, but might hurt more than help, and I'm wondering if there's a suboptimal-but-still-useful range somewhere in between.
For the record, this isn't a question of what scan parameters are recommended, but rather is in the context of data that's already been collected, which I would like to preprocess as well as possible.
So, at what resolutions would you recommend (a) completely ignoring T2w/FLAIR images; (b) including T2w/FLAIR images that pass QC; (c) trying and seeing? Do these answers change at all with T1w resolution?
-- Chris Markiewicz Center for Reproducible Neuroscience Stanford University