Diffusion MRI simulation of realistic neurons with SpinDoctor and the Neuron Module

The simulation of diffusion MRI arising from realistic neuron models can help investigate the cellular microstructure. However, ensuring correct connectivity between the distinct compartments comprising the system while minimizing the computational burden is one of the main challenges in our community. The design of accurate and efficient simulation algorithm and the construction of high quality neurons meshes are two difficulties in addressing this problem.The Neuron Module can perform HARDI simulation of realistic neurons at various b-values and diffusion sequences with high accuracy.The computational time per gradient direction is around 30 seconds which is much faster than some Monte-Carlo simulators. The linear relationship between the diffusion direction averaged signal and one over square root of b for tubular structures is validated by our simulations. We believe our work can add substantially to the understanding of the imaging of neuronal microstructure.