Publications¶

The main publications documenting SimNIBS development are

Version 4.0¶

charm segmentation pipeline¶

Puonti O, Van Leemput K, Saturnino GB, Siebner HR, Madsen KH, Thielscher A. (2020). Accurate and robust whole-head segmentation from magnetic resonance images for individualized head modeling. Neuroimage, 219:117044.

TMS coil models¶

Drakaki M, Mathiesen C, Siebner HR, Madsen KH, Thielscher A. (2022). Database of 25 validated coil models for electric field simulations for TMS. Brain Stimulation.

Version 3.2¶

TMS Optimiztion (ADM method)¶

Gomez, L. J., Dannhauer, M., & Peterchev, A. V. (2020). Fast computational optimization of TMS coil placement for individualized electric field targeting. NeuroImage 2021; 228: 117696.

Magnetic Field Calculations¶

Yazdanian, H., Saturnino, G. B., Thielscher, A., & Knudsen, K. (2020). Fast evaluation of the Biot-Savart integral using FFT for electrical conductivity imaging. Journal of Computational Physics, 109408.

Electric Field Strength Optimization¶

Saturnino, G. B., Madsen, K. H., & Thielscher, A. (2020). Optimizing the Electric Field Strength in Multiple Targets for Multichannel Transcranial Electric Stimulation. bioRxiv.

Version 3.1¶

TDCS Optimization¶

Saturnino, G. B., Siebner, H. R., Thielscher, A., & Madsen, K. H. (2019). Accessibility of cortical regions to focal TES: Dependence on spatial position, safety, and practical constraints. NeuroImage, 203, 116183.

TMS Optimization¶

Weise, K., Numssen, O., Thielscher, A., Hartwigsen, G., & Knösche, T. R. (2020). A novel approach to localize cortical TMS effects. Neuroimage, 209, 116486.

Version 3.0¶

Assessement of accuracy and speed of new solver¶

Saturnino, Guilherme B., Kristoffer H. Madsen, and Axel Thielscher. (2019). “Electric field simulations for transcranial brain stimulation using FEM: an efficient implementation and error analysis.” Journal of neural engineering 16.6 066032.

Uncertainty Quantification¶

Version 2.1¶

Validation¶

Puonti, O., Saturnino, G. B., Madsen, K. H., & Thielscher, A. (2020). Value and limitations of intracranial recordings for validating electric field modeling for transcranial brain stimulation. Neuroimage, 208, 116431.

Tutorial paper¶

Saturnino, G. B., Puonti, O., Nielsen, J. D., Antonenko, D., Madsen, K. H., & Thielscher, A. (2019). Simnibs 2.1: A comprehensive pipeline for individualized electric field modelling for transcranial brain stimulation. In Brain and Human Body Modeling (pp. 3-25). Springer, Cham.

headreco pipeline and assessement of skull segmentation accuracy¶

Nielsen, J. D., Madsen, K. H., Puonti, O., Siebner, H. R., Bauer, C., Madsen, C. G., …, and Thielscher, A. (2018). Automatic skull segmentation from MR images for realistic volume conductor models of the head: Assessment of the state-of-the-art. NeuroImage, 174, 587-598.

Version 2.0¶

Overview¶

Thielscher, A., Antunes, A. and Saturnino, G.B. (2015), Field modeling for transcranial magnetic stimulation: a useful tool to understand the physiological effects of TMS? IEEE EMBS 2015, Milano, Italy

mri2mesh pipeline and Version 1.0¶

Windhoff, M., Opitz, A., and Thielscher, A. (2013). Electric field calculations in brain stimulation based on finite elements: an optimized processing pipeline for the generation and usage of accurate individual head models. Human brain mapping, 34(4), 923-935.