This is the general GrattonLab folder.
Main processing stream: 0. Change DICOM to NII and into BIDS format using code in other gitrepo. Start QC document and fill based on first steps
- Run code in Preprocessing (fmriprep), check, and update QC document.
- Run motion metrics code (motion_calc_utilities), check, and update QC document. (datalist must be made first)
[if doing functional connectivity analyses] A3. Run make_fs_masks to erode WM masks used in FCprocess. A4. Run FCPRocess folder code (FCprocess_GrattonLab then fcimage_corrmat_volume). Check outputs and update QC document. A5. Run Surface Pipeline code (PostFreeSurferPipeline then post_fc_processing_batch_GrattonLab code). Check outputs (possibly creating a dconn with make_dconn) and update QC document.
[if doing task fMRI analyses] B3. Run code in taskproc folder
Major updates:
09/2019 Adding basic preprocessing scripts for the lab 03-08/2020 Added FC process, surface processing scripts and edits based on testing 11/2020 AD made edits to fMRIprep and FCprocess to account for datatype bug and new updates