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Option | What it does | |
|---|---|---|
Brainstem/Cerelellum (SUIT) | Runs SUIT for all modalities Will use mask (for normalization step) in T1 “SUIT” subfolder in T1preprocess study folders. Order of priority of mask choiuce is:
| |
Require manual mask | Looks for manually created SUIT mask on T1; will not run if it is missing In SUIT subfolder of T1preprocess File suffix {T1 filename}_manedit” | |
Apply fMRI-VOI mask | Looks for manually created SUIT mask based on fMRI. Will not run if missing. In “SUIT” subfolder of fMRI files, in fMRIpreprocess study folders Typically based of on mean fMRI File is suffix …_SUITVOI_fMRI Legacy file is suffix “_fMRI”, and it will use that if present. This will be the first choice ahead of “*_SUITVOI_fMRI” (probably should change that). The new name shows it is specific to SUIT, whereas “_fMRI” could be anything. | Since the fMRI scans are slightly distorted wrt T1’s the SUIT space is slightly different. |
Voxel size | Voxel size when reslicing into SUIT normalized space (so what will be analyzed in stats) | |
Smoothing | Smoothing fwhm |
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