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CSA-QBI and Hough Tractography for Diffusion MRI

version 2.0 (63 KB) by Iman Aganj
Matlab codes for Diffusion MRI CSA-ODF computation, Hough tractography, and connectomic analysis.


Updated 26 Jun 2021

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This diffusion-weighted MRI processing toolbox can be used to:
• Compute the Q-Ball Imaging Orientation Distribution Function in Constant Solid Angle (CSA-ODF) (Aganj et al, MRM 2010).
• Perform Hough-transform tractography (Aganj et al, MedIA 2011).
• Visualize ODFs and tracts, and export them for further analysis.
• Verify the correctness of the diffusion gradient table (Aganj, Sci Rep 2018).
• Compute and interactively visualize the connectivity matrix.
• Augment the connectivity matrix with indirect connections (Aganj et al, ISMRM 2014).
For short tutorials, see EXAMPLE.m and EXAMPLE_CLI.m.
If available, GPUs can be used to speed up the computation.

Cite As

I. Aganj, "Orientation Distribution Function in Constant Solid Angle (CSA-ODF) and Hough-Transform Tractography Toolbox", 2021.

Aganj, Iman, et al. “Reconstruction of the Orientation Distribution Function in Single- and Multiple-Shell q-Ball Imaging within Constant Solid Angle.” Magnetic Resonance in Medicine, vol. 64, no. 2, Wiley, June 2010, pp. 554–66, doi:10.1002/mrm.22365.

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Aganj, Iman, et al. “A Hough Transform Global Probabilistic Approach to Multiple-Subject Diffusion MRI Tractography.” Medical Image Analysis, vol. 15, no. 4, Elsevier BV, Aug. 2011, pp. 414–25, doi:10.1016/

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Aganj, Iman. “Automatic Verification of the Gradient Table in Diffusion-Weighted MRI Based on Fiber Continuity.” Scientific Reports, vol. 8, no. 1, Springer Science and Business Media LLC, Nov. 2018, doi:10.1038/s41598-018-34940-4.

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I. Aganj, G. Prasad, P. Srinivasan, A. Yendiki, P. M. Thompson, and B. Fischl, “Structural brain network augmentation via Kirchhoff's laws,” in Proceedings of the Joint Annual Meeting of ISMRM-ESMRMB, Milan, Italy, 2014.

MATLAB Release Compatibility
Created with R2021a
Compatible with any release
Platform Compatibility
Windows macOS Linux

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