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This script applies the inverse operator to MEG data and outputs the current estimates. The current estimates are morphed to the average brain (see below), for grand-averaging. | This script applies the inverse operator to MEG data and outputs the current estimates. The current estimates are morphed to the average brain (see below), for grand-averaging. The results (*.stc-files) can be viewed in mne_analyze. |
This script applies the inverse operator to MEG data and outputs the current estimates. The current estimates are morphed to the average brain (see below), for grand-averaging. The results (*.stc-files) can be viewed in mne_analyze.
The main ingredients are
* the inverse operator
* the MEG data (fiff-files)
* the average cortical surface (see below)
For more details and further options see the MNE manual.
# ## Your variables path='<myMEGdatapath>' # where your MEG fiff-files are MRIpath='/myMRIdirectory/' # where your MRI subdirectories are outpath='/myoutpath' # path for output files #condition names as used in file names to which inverse operator shall be applied conds=('cond1' 'cond2' 'cond3') # subjects names used for MRI data subjects=(\ 'Subject1' \ 'Subject1' \ 'Subject1' \ ) # MEG IDs (your directory structure may differ) subj_pre=(\ 'meg10_0001' \ 'meg10_0002' \ 'meg10_0003' \ ) # MEG subdirectories (your directory structure may differ) subj_dir=(\ '100001' \ '100002' \ '100003' \ ) ##################### # SCRIPT BEGINS HERE: nsubjects=${#subjects[*]} lastsubj=`expr $nsubjects - 1` nconds=${#conds[*]} lastcond=`expr $nconds - 1` for m in `seq 0 ${lastsubj}` do echo " " echo " Computing movies for SUBJECT ${subjects[m]}" echo " " for c in `seq 0 ${lastcond}` do # Current Estimates mne_make_movie \ --subject {subjects[m]} \ --inv ${path}/${subj_pre[m]}_0${subjects[m]}/${subj_dir[m]}/YourName_1L-MEG-loose0.2-inv.fif \ --meas ${path}/${subj_pre[m]}/${subj_dir[m]}/${conds[c]}.fif \ --morph average \ --smooth 5 \ --bmin -100 \ --bmax 0 \ --stc ${outpath}/STC/${subj_pre[m]}_${conds[c]} done # conditions done # subjects