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This tutorial explains how to use the FiberTracking tool to process output of the tensorcalc program

1. Download the FiberTracking tool here

2. Launch the FiberTracking and click on the 'Load Tensor Calc .float' button

3. Select the Tensor.float.001 file.
The program will load all the Tensor.float.### files. This can take a long time (less than 1 minute)

4. The FA map should be displayed on the 3 2D viewers and on the 3D viewer.

4. Now you can save the FA maps in .gipl format to load it on SNAP and create Region of Interest
click on File > Save Fractionnal Anisotropy
Specify the filename: FA.gipl
Note: You need to specify .gipl at the end of the filename to save it in gipl format (otherwise, it will be saved in analyze format)

5. On SNAP, you can create one or two regions of interest
Load the FA.gipl as the grey level image.
- Select the first Label (Label1) to draw the first region of interest

- Select the second Label (Label2) to draw the second region of interest

Here is the result with both regions of interest

Save the result ROI as a ROI.gipl using the 'Save Segmentation' menu.

5. In FiberTracking, click on the 'Computation' part

6. Click on the 'Load ROIs' button and select the ROI.gipl file

7. If the ROI.gip contains only one label (label1), you have be sure that the 'track the whole brain' is checked.
On this example, you don't have to check this box.

8. Then, Click on the 'Compute Fibers!' button

9. The programs is tracking the fibers from region 1 to region 2 and from region2 to region1.
At then end of the tracking, the fibers are displayed on the 3D window.

 

10. Now, you can save the fibertracts: Click on File > Save Fibers
This .fib can be anaylsed with the FiberViewer.

11. You can adjust tracking parameters.
If you want more fibers, you can decrease the 'Angle of Max Deviation'