3dTshift in fMRIPrep

Software Support
1

Summary of what happened:

Hi,

Where can I find details about the exact 3dTshift call that fmriprep implements. AFNI program: 3dTshift lists a series of parameters that need to be chosen.

I want to do this for some slice-timing algorithms comparison I am performing.

Thanks

Command used (and if a helper script was used, a link to the helper script or the command generated):

PASTE CODE HERE

Version:

Environment (Docker, Singularity / Apptainer, custom installation):

Data formatted according to a validatable standard? Please provide the output of the validator:

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Relevant log outputs (up to 20 lines):

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Screenshots / relevant information:

2

You can see the exact command used if you find the bold_stc_wf.slice_timing_correction folder in the working directory from running fMRIPrep, but to see how it’s called in the code you can see it here: fmriprep/fmriprep/workflows/bold/stc.py at b74324ec2318fad30194907676fdaf07f5fb6f38 · nipreps/fmriprep · GitHub