Full steps:
- run recon-all first:
job_recon_all.sh - skip 4 frames (done in CBIG_preproc)
- run fmriprep (--output-space fsaverage6):
fmriprep_singleSub.shandrun_fmriprep_GSP.sh - run all post-processing steps:
run_postproc_GSP.sh- regression (GLM using motion, wm, csf, whole-brain regressors) with censoring:
fmriprep_regress.sh - interpolation and bandpass:
fmriprep_censor_bp.sh - smooth and downsample to fsaverage5:
fmriprep_sm_ds.sh
- regression (GLM using motion, wm, csf, whole-brain regressors) with censoring:
- run QC (single subject for now):
fmriprep_QC.sh - compute clusters:
fmriprep_clustering.sh