Hi all,
We recently updated from 23 to 24 because of less than ideal susceptibility distortion. In running a couple of people, we noticed the brain masks seem to be quite different. It appears to include more non-brain voxels? Is there something that has changed to produce this difference? And can we still get this tighter brain mask from the new version?
Here is the same person with their brain + their brain mask colored on top for v23 and v24 respectively:
v23
v24
And the maps overlaid:
fMRIPrep command: /opt/conda/envs/fmriprep/bin/fmriprep /fs/ess/PCON0381/NOMAD/NOMAD_data/bids_data /fs/ess/PCON0381/NOMAD/NOMAD_data/derivatives/preprocessed participant --participant_label sub-5002 --work-dir /fs/scratch/PCON0381/fmriprep/NOMAD/work --ignore slicetiming sbref --fs-license-file /fs/ess/PCON0381/script_dev/image_preproc/utils/license.txt
^ the only difference in the command was the version