Page Comparison

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:

1. Modality-specific (only fMRI as of 2020-12)

2. T1 manually-created mask (see next option in table)

3. Automatically-generated mask.

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”

Does not override the fmodelity-specific manual mask (e.g., fMRI, see next option in table)

Apply fMRI-VOI mask

Looks for manually created SUIT mask based on fMRI. Will not run if missing. Overrides “Require manual mask” option (above)

In “SUIT” subfolder of fMRI files, in fMRIpreprocess study folders

Typically based on mean fMRI

There are two file naming options

1. File

1. suffix …_SUITVOI_fMRI

1. (preferred option)

2. File suffix “_fMRI”

1. (legacy); This will be the first choice ahead of “*_SUITVOI_fMRI” (probably should change that).

Rationale for new name: “_SUITVOI_fMRI” 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
(each modality)

Voxel size when reslicing into SUIT normalized space (so what will be analyzed in stats)

Smoothing
(each modality)

Smoothing fwhm