1248
Comment:
|
1488
|
Deletions are marked like this. | Additions are marked like this. |
Line 38: | Line 38: |
You should now realign the MRI and MEG coordinate systems, otherwise the following analyses (forward solution, inverse operator etc.) won't make sense. The procedure is described in the MNE manual, e.g. chapter 12.11. (sample data set). |
Head Model and Source Space Creation in MNE
Make sure you've typed
mne_setup_2.6.0
and
setenv SUBJECTS_DIR </myMRIdirectory/>
in your Linux command window.
Then run the following scripts.
SUBJECTS_DIR='</myMRIdirectory/>' for SUBJECT in Subject1 Subject2Subject3 # use your subject names here do cd ${SUBJECTS_DIR} # creates surfaces necessary for BEM head models mne_watershed_bem --overwrite --subject $SUBJECT ln -s $SUBJECTS_DIR/$SUBJECT/bem/watershed/$SUBJECT'_inner_skull_surface' $SUBJECTS_DIR/$SUBJECT/bem/inner_skull.surf ln -s $SUBJECTS_DIR/$SUBJECT/bem/watershed/$SUBJECT'_outer_skull_surface' $SUBJECTS_DIR/$SUBJECT/bem/outer_skull.surf ln -s $SUBJECTS_DIR/$SUBJECT/bem/watershed/$SUBJECT'_outer_skin_surface' $SUBJECTS_DIR/$SUBJECT/bem/outer_skin.surf ln -s $SUBJECTS_DIR/$SUBJECT/bem/watershed/$SUBJECT'_brain_surface' $SUBJECTS_DIR/$SUBJECT/bem/brain_surface.surf # creates fiff-files for MNE describing MRI data mne_setup_mri --overwrite --subject $SUBJECT # create a source space from the cortical surface created in Freesurfer mne_setup_source_space --spacing 5 --overwrite --subject $SUBJECT done
You should now realign the MRI and MEG coordinate systems, otherwise the following analyses (forward solution, inverse operator etc.) won't make sense. The procedure is described in the MNE manual, e.g. chapter 12.11. (sample data set).