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| Operation | Input format | Software | Output format | Comment / Link | |
|---|---|---|---|---|---|
| 1 | Maxfilter | .fif | maxfilter | .fif | maxfilter |
| 2 | Mark bad data segments | .fif | Muse | .fif | Review data with Muse |
| 3 | Use ICA to remove blinks and cardiac activity | .fif | Matlab (FieldTrip) | .fif | |
| 4 | Data import in Brainstorm | .fif | Brainstorm | Brainstorm | We use a single step of this tutorial. We import the cleaned data from previous step. Do not ignore epochs of different length. |
| 5 | Compute noise covariance | Brainstorm | Brainstorm | Brainstorm | Compute noise covariance in Brainstorm. Note that we use a resting-state segment (and not an empty room recording). This is ok and is because we are interested in source activity deviating from rest, rather than just any brain activity. |
Preprocessing: task data
| Operation | Input format | Software | Output format | Comment / Link | |
|---|---|---|---|---|---|
| 1 | Maxfilter | .fif | maxfilter | .fif | maxfilter |
| 2 | Data import in Brainstorm | .fif | Brainstorm | Brainstorm | We use a single step of this tutorial. We import the cleaned data from previous step. Do not ignore epochs of different length. Reading events channel, time period: 0-48000 ms If necessary, delete the second epoch of each kind. |
| 3 | Mark the onset of each movement | Brainstorm | Brainstorm | Brainstorm | This part is undocumented so far. Please add! |
Source estimation
| Operation | Input format | Software | Output format | Comment / Link | |
|---|---|---|---|---|---|
| 1 | MRI segmentatoin | dicom | freesurfer | freesurfer | Brainstorm tutorial |
| 2 | Import anatomy | freesurver | Brainstorm | Brainstorm | Brainstorm tutorial |
| 3 | Create a head model | Brainstorm | Brainstorm | Brainstorm | Brainstorm tutorial. Right click subject, compute head model. |
| 4 | Source estimation (wMNE) | Brainstorm | Brainstorm | Brainstorm | Brainstorm tutorial |
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