S²M Output Structure (FCD Modality)
For the FCD modality, a folder containing the following tags will be created:
- FCD: for Focal Cortical Dysplasia
- Morph: for Morphometry
- SK8: for the smoothing kernel size (in this case, 8 means 8 × 8 × 8 mm³ FWHM)
- FLA: for a FLAIR image included (optional)
- Harm: for harmonization performed (optional)
- 2601011200: for the study start date/time [YYMMDDHHmm] (in this example, January 1, 2026, at 12:00)
Inside the example folder "FCD_Morph-SK8-Fla-Harm_2606091100":
- A text file containing some test information, such as statistical thresholds, Reference Dataset choices, etc.: Demographic_Description_FR_18y-64y.txt
- A report file containing testing information, statistical thresholds, slice-view images, and anatomical descriptions of the results in HTML and PDF format: FinalReport.
- A text file containing a raw anatomical description of the thresholded results: sub-00001_acq-iso08_T1w_AAL_FCD_map_Zsc3.7_ClustSz25vx_s8.txt
- Native/subject-space UNthresholded FCD interactional map in compressed NIfTI format: Native_sub-00001_acq-iso08_T1w_Interactional_Zmap_s8.nii.gz
- Native/subject-space THresholded FCD map with suggestive FCD regions in compressed NIfTI format: Native_sub-00001_acq-iso08_T1w_FCD_map_Zsc3.7_ClustSz25vx_s8.nii.gz. Note that the filename explicitly contains the statistical threshold (Zsc3.7), extent threshold (ClustSz25vx), and smoothing kernel size (s8).
- Normalized (MNI-152) UNthresholded FCD interactional map in compressed NIfTI format: sub-00001_acq-iso08_T1w_Interactional_Zmap_s8.nii.gz
- Normalized (MNI-152) THresholded FCD map with suggestive FCD regions in compressed NIfTI format: sub-00001_acq-iso08_T1w_FCD_map_Zsc3.7_ClustSz25vx_s8.nii.gz. Note that the filename explicitly contains the statistical threshold (Zsc3.7), extent threshold (ClustSz25vx), and smoothing kernel size (s8).
- Slice-view PNG images for the THresholded and UNthresholded maps.
The normalized maps can be overlaid on the resulting "wm" image inside the "mri" folder using, for example, MRIcroGL software:
The Native/subject-space maps can also be overlaid on the original input T1WI also using MRIcroGL software:
