SpinDoctor: A MATLAB toolbox for diffusion MRI simulation

0509266 - ÚTIA 2020 RIV US eng J - Journal Article
Li, J. R. - Nguyen, V. D. - Tran, T. N. - Valdman, Jan - Trang, C. B. - Nguyen, K. V. - Vu, D. T. S. - Tran, H. A. - Tran, H. T. A. - Nguyen, T. M. P.
SpinDoctor: A MATLAB toolbox for diffusion MRI simulation.
Neuroimage. Roč. 202, č. 1 (2019), č. článku 116120. ISSN 1053-8119. E-ISSN 1095-9572
R&D Projects: GA ČR GA17-04301S
Institutional support: RVO:67985556
Keywords : Bloch-torrey equation * Diffusion magnetic resonance imaging * Simulation * Finite elements * Apparent diffusion coefficient
OECD category: Pure mathematics
Impact factor: 5.902, year: 2019
Method of publishing: Limited access
http://library.utia.cas.cz/separaty/2019/MTR/valdman-0509266.pdf https://www.sciencedirect.com/science/article/pii/S1053811919307116

This paper describes a publicly available MATLAB toolbox called SpinDoctor that can be used 1) to solve the Bloch-Torrey partial differential equation in order to simulate the diffusion magnetic resonance imaging signal. 2) to solve a diffusion partial differential equation to obtain directly the apparent diffusion coefficient. 3) to compare the simulated apparent diffusion coefficient with a short-time approximation formula. The partial differential equations are solved by P1 finite elements combined with built-in MATLAB routines for solving ordinary differential equations. The finite element mesh generation is performed using an external package called Tetgen.
Permanent Link: http://hdl.handle.net/11104/0300012