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| Deletions are marked like this. | Additions are marked like this. |
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| mne_watershed_bem | '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_preprocessing Pre-processing MRI Data in Freesurfer]:''' |
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| mne_setup_mri | * mri_convert * recon-all |
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| mne_setup_source_space | '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Segment Head Surfaces]:''' |
| Line 9: | Line 10: |
| Align coordinate systems | * mne_watershed_bem |
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| mne_setup_forward_model | '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Prepare MRI Data for MNE]:''' |
| Line 13: | Line 15: |
| mne_do_forward_solution | * mne_setup_mri |
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| Average MEG Data, Compute Covariance Matrix: mne_process_raw |
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| Compute Average Cortical Surface: make_average_subject |
'''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Prepare Source Space (Cortical Surface) for MNE]:''' |
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| Create Inverse Operator: mne_do_inverse_operator |
* mne_setup_source_space |
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| Compute Source Estimates: mne_make_movie |
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| Average Source Estimates: mne_average_estimates |
'''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Align MEG and MRI coordinate systems]:''' |
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| Extract ROI data: mne_make_movie |
* mne_analyze |
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| Visualisation: mne_analyze |
'''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ForwardSolution Set Up BEM Information for MNE]:''' * mne_setup_forward_model '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ForwardSolution Compute Forward Solution]:''' * mne_do_forward_solution '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_Averaging Average MEG Data], [http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_CovarianceMatrix Compute Covariance Matrix]:''' * mne_process_raw '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ComputeEstimates Compute Average Cortical Surface]:''' * make_average_subject '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_InverseOperator Create Inverse Operator (from Forward Solution)]:''' * mne_do_inverse_operator '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ComputeEstimates Compute Source Estimates (Apply Inverse Operator to MEG data)]:''' * mne_make_movie '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ComputeEstimates Average Source Estimates]:''' * mne_average_estimates '''[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_Labels Extract ROI data]:''' * mne_make_movie |
Overview of MNE Processing Steps and Commands
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_preprocessing Pre-processing MRI Data in Freesurfer]:
- mri_convert
- recon-all
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Segment Head Surfaces]:
- mne_watershed_bem
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Prepare MRI Data for MNE]:
- mne_setup_mri
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Prepare Source Space (Cortical Surface) for MNE]:
- mne_setup_source_space
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_MRI_processing Align MEG and MRI coordinate systems]:
- mne_analyze
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ForwardSolution Set Up BEM Information for MNE]:
- mne_setup_forward_model
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ForwardSolution Compute Forward Solution]:
- mne_do_forward_solution
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_Averaging Average MEG Data], [http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_CovarianceMatrix Compute Covariance Matrix]:
- mne_process_raw
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ComputeEstimates Compute Average Cortical Surface]:
- make_average_subject
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_InverseOperator Create Inverse Operator (from Forward Solution)]:
- mne_do_inverse_operator
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ComputeEstimates Compute Source Estimates (Apply Inverse Operator to MEG data)]:
- mne_make_movie
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_ComputeEstimates Average Source Estimates]:
- mne_average_estimates
[http://imaging.mrc-cbu.cam.ac.uk/meg/AnalyzingData/MNE_Labels Extract ROI data]:
- mne_make_movie