Summary of what happened:
I used fieldmap less SDC for my rsfMRI data. However, the output looks a bit weird. There seems to be some significant distortion along with ventricles, and i think it came from the fmap Hz created from the pipeline. I would appreciate if anyone can help me to evaluate this - is this normal to see some loss of signals in the center of the brain?
Thank you!!
Command used (and if a helper script was used, a link to the helper script or the command generated):
singularity run --cleanenv \
--bind ${bids_root_dir}:/data:ro \
--bind ${out_dir}:/out \
--bind ${work_dir}:/work \
--bind ${FS_LICENSE}:/freesurfer_license.txt \
/home/groups/vhenders/simg/fmriprep.sif \
/data /out participant \
--use-syn-sdc \
--ignore fieldmaps \
--participant-label $subj \
--md-only-boilerplate \
--fs-license-file $FS_LICENSE \
--nthreads $nthreads \
--stop-on-first-crash \
--work-dir $SCRATCH/Work
Version:
24.1.0
Environment (Docker, Singularity / Apptainer, custom installation):
Singularity
Data formatted according to a validatable standard? Please provide the output of the validator:
PASTE VALIDATOR OUTPUT HERE
Data went through bids-validator and no error.
Relevant log outputs (up to 20 lines):
PASTE LOG OUTPUT HERE
The log looks fine, no error presented.
