Visualization


Surface visualization



DSI Studio is able to render cortical surface and assist localization of the fiber tracts, and the cortical surface can be added using the following steps:

If your data are templates or reconstructed by QSDR:
(a) switching slice from [qa] to [icbm_wm] at the top of the 3D window.
(b) [Slices][Add Isosurface][Full] try different thresholds to the best surface rendering. A higher threshold often results in the smaller surface object, while the lower threshold may lose structural detail. You may need to repeat this step several times until you get a satisfactory result.

If your data are reconstructed by GQI:
(a) Insert T1W using [Slices][Insert T1W/T2W images]. DSI Studio will register the image with MNI-space T1W and ask users for confirmation. This registration allows DSI Studio to remove the skull.
(b) [Slices][Add Isosurface][Full]. DSI Studio will ask for the confirmation of a registration result to remove the skull. After then, it will ask for the threshold for creating an isosurface. A higher threshold often results in the smaller surface object, while the lower threshold may lose structural detail. You may need to repeat this step several times until you get a satisfactory result.

*The opacity of the isosurface can be adjusted in the [Surface Rendering] option in the right-upper window.
*You may create a cross-section of the surface by selecting the drop-down list on the top of the 3D window. The level of the cross-section is determined by the slice position. The rendering color and opacity can also be changed using the options under the item named "Surface".


Region visualization






DSI Studio provides line-art for coronal sections of regions using the following steps:


1. Load HCP1065.1mm.fib.gz (available at http://brain.labsolver.org/diffusion-mri-templates/hcp-842-hcp-1021) at [Step T3 Fiber Tracking]
2. Click [Step T3a][Atlas..] and select BrainSeg. Add all regions
3. [Step T3c Options][Region Windows][Show Edge[ = All
4. Load MNI-space regions using [Slices][Insert T1W/T2W images]
5. On the middle top toolbar, select the region and change background color to white and foreground color to red/yellow, check overlay








ą
3.png
(278k)
Frank Yeh,
Mar 20, 2013, 9:05 AM
ą
4.png
(99k)
Frank Yeh,
Mar 20, 2013, 9:10 AM
Comments