MNE BIDS MEG Anonymization
UNDER CONSTRUCTION
Introduction to Import/Upload Process
Datasets must be organized prior to anonymization.
Several organizational options will be provided to assist in recognizing the datasets.
There are a variety of options ranging from extensive renaming of files to manipulating search expressions (choose the option most appropriate for your lab)
Prior to anonymization - a "master_list" will be created linking the appropriate input information.
Setup Container
#This installs mne_docker / mne-bids / mne-bids-pipeline git clone git@tako:mne_singularity cd mne_singularity sudo singularity build singularity_build.sif singularity_build.def
Link freesurfer or build from singularity:
ln -s PATH_TO_FREESURFER ./freesurfer
Create Head Surface to view anonymization
#Create enigma/import/import_mri.sh
Data Curating before anonymization
OPTION 1
This option requires the most space/manual labor, but is easy to troubleshoot
Copy all data into a single folder using the following format:
All MRIs must be of .nii or .mgz
All MEG datasets must be single files or directories: .ds, .fif, .sqd, 4D-dataset (?)
MRIs and MEG datasets must have the same prefix. EG - Subj1.ds Subj1.nii OR LastName_FirstName.fif LastName_FirstName.nii OR