Is the slice delay of each slice needed for slice time correction with preprocess-sess? - Freesurfer

26 Feb 2024


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Dear all,
Have I understood correctly that the slice delay of each slice is not
needed when performing slice time correction with preprocess-sess?
I am processing an open OASIS fMRI dataset. The dataset has fMRI data in
nifti format and JSON files that contain information about the data.
In the instructions they say: "Slice timing is included in the JSON when
available. Some original DICOM files did not have slice timing info. When
slice timing information is unavailable use the ratio TR/#slices."
The data is collected with a Siemens scanner.
If the slice timing is available it seems to be interleaved:
"SliceTiming": [
        1.1025,
        0,
        1.165,
        0.059999999999999998,
        1.2250000000000001,
        0.1225,
        1.2875000000000001,
        0.1825,
        1.3474999999999999,
        0.245,
        1.4099999999999999,
        0.30499999999999999,
        1.47,
        0.36749999999999999,
        1.5325,
        0.42749999999999999,
        1.595,
        0.48999999999999999,
        1.655,
        0.55000000000000004,
        1.7175,
Could I just run slice time correction with the siemens option?
Best regards,
Maria