Coordinates of 3D model and tracts

[Kevin Jiang]

Hello,

I try to export the 3D model and tracts separately. So I saved the 3D model as .obj file and tracts as .mat file. Then I used the python package Pyvista to visualize both of them. The following is what shows in DSI Studio. (the region was reconstructed from template and all tracts are inside the region)

This is what they are in Pyvista. It seems that they don't share the same coordinate system in the studio. How can I export them in single coordinate system.

I have tried these options but they didn't work

[Frank Yeh]

You can save tracts to .obj 
https://www.youtube.com/watch?v=X9PvIRsGiZA

[Kevin Jiang]

Hi Frank,

Thanks for your reply. I tried saving tracts to .obj but it doesn't contain the orientation information of tracts. I aim to assign the orientation of tracts to voxel elements for finite element simulation.

[Frank Yeh]

You may save the tract as .txt format to extract the trajectories. obj
is mostly for rendering.

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[Kevin Jiang]

Exactly, both .txt and .mat can be used to extract trajectories. And this is where I encountered the problem. Tracts seems to be defined in a coordinate system and the mesh of 3D model seems to be defined in another coordinate system. Maybe it's the reason why there is a translation between them. So I want to export them in one single system

[Frank Yeh]

I will review the code and see if I can find a clue of the differences.

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[Frank Yeh]

Sorry for getting back to this late.
I don't see there is a translocation between them.
Both tract and meshes are in the same voxel coordinates.

Frank

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