MNE Sample Data: BEM from T1 images¶
Demonstrated features¶
| Feature | This example |
|---|---|
| MEG processing | ✅ |
| EEG processing | ❌ |
| Maxwell filter | ❌ |
| Frequency filter | ✅ |
| Artifact regression | ❌ |
| SSP | ❌ |
| ICA | ❌ |
| Evoked contrasts | ❌ |
| Time-by-time decoding | ❌ |
| Time-generalization decoding | ❌ |
| CSP decoding | ❌ |
| Time-frequency analysis | ❌ |
| BEM surface creation | ✅ |
| Template MRI | ❌ |
Dataset source¶
This dataset was acquired from https://openneuro.org/datasets/ds000248
How to download this dataset
Run in your terminal:
Run in your terminal
openneuro-py download \
--dataset=ds000248 \
--include=sub-01 \
--include=sub-emptyroom \
--include=derivatives/freesurfer/subjects \
--exclude=derivatives/freesurfer/subjects/fsaverage/mri/aparc.a2005s+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/fsaverage/mri/aparc+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/fsaverage/mri/aparc.a2009s+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/fsaverage/xhemi/mri/aparc+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/sub-01/mri/aparc+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/sub-01/mri/aparc.DKTatlas+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/sub-01/mri/aparc.DKTatlas+aseg.mgz \
--exclude=derivatives/freesurfer/subjects/sub-01/mri/aparc.a2009s+aseg.mgz
Note that we have to explicitly exclude files due to a problem with OpenNeuro's storage.
Configuration¶
Click to expand
Python
.
bids_root = "~/mne_data/ds000248"
deriv_root = "~/mne_data/derivatives/mne-bids-pipeline/ds000248_T1_BEM"
subjects_dir = f"{bids_root}/derivatives/freesurfer/subjects"
subjects = ["01"]
conditions = ["Auditory"]
ch_types = ["meg"]
bem_mri_images = "T1"
recreate_bem = True
freesurfer_verbose = True # Prevent the CI from canceling the job prematurely