nutmeg:Visualization
From NITRC Wiki
Previously created results can be viewed by typing nut_results_viewer at the command line or clicking the button on the main GUI.
Select the s_beam*.mat or s_beamtf*.mat file created previously that you wish to view. This file can stand alone; in other words you may open up a new instance of Nutmeg and go directly to viewing a saved result without reloading MRI information, or other session.mat file information.
Upon opening, the maximum peak across space and time will be shown.
You may move your cursor around anywhere within your VOI on the MRI and the corresponding time-series will be updated in the left-hand window. Click 'All Space & Time' to go to max activation (for selected frequency band if viewing tfbf results). Click on "Selected Voxel" to bring you to the max time point at that voxel. Alternatively, you may select a different time peak (or time window) and then the spatial activations at that new time will be updated in the right-hand window (click on "Selected Time Points(s)" to bring you to the max voxel for that time of interest).
By changing the “Threshold +/-” values, you can limit the display of power changes to values above and below a certain power change cutoff.
The display style may be changed for better viewing when shown in posters, presentations, or publication.
You can label, store, redisplay, and export voxels of interest (VOI) with the File Browser Panel of nut_results_viewer.
"Display on Rendered Brain" will display the results on the 3D rendered brain as created in SPM2's render function (which must be done first before clicking on the button here.) Note this will bring the display to the rendered view, and you will have to reload the activation to get back to the standard results viewer.
For evoked results
The activations shown are power magnitude maps, and the scale of the activations is arbitrarily set to range from 0-1000. Selecting "Source Time Series" in the display option pulldown menu will show amplitude ranging from -1000 to 1000. Note that polarities may be ambiguous between voxels using the currently implemented beamformer. The threshold is automatically set to 500 (half the maximum activation), and you may change that as desired.
The time series can be filtered. If the bandpass button is selected, it will filter only the time series at the selected voxel that is displayed. Clicking "Apply Filters to Volume" will apply to the whole volume, but then the working copy of your activations will be altered and the filtering cannot be undone unless you re-open that s_beam*.mat file. (Sorry the notch filter doesn't work at this step at present...you should apply it to your sensor data before applying the beamformer anyway).
For induced TFBF results
- In matlab, run tv s_beamtf_whatever -- this will open up NUTMEG and the time-frequency viewer.
- Click around the MRI, click around the spectrogram. It's fun!
- Okay, enough fun. Now it's time to do the stats.
