The EFMouse.m Matlab class models electric fields induced by current stimulation in the mouse.
For details see Sanchez-Romero et al. (2024). bioRxiv.
Run the Matlab notebooks montage_4x1.mlx and montage_1x1.mlx to reproduce results in Sanchez-Romero et al.
For convenience, you can visualize (not interact with) the notebooks directly here montage_4x1.hmtl and montage_1x1.hmtl.
Developed by Ruben Sanchez-Romero, Sibel Akyuz and Bart Krekelberg
Center for Molecular and Behavioral Neuroscience (CMBN), Rutgers Newark
For support open an issue.
If you use EFMouse in your research, please cite our manuscript: Sanchez-Romero R., Akyuz, S., & Krekelberg, B. (2024). EFMouse: a Matlab toolbox to model stimulation-induced electric fields in the mouse brain. bioRxiv. https://doi.org/10.1101/2024.07.25.605227
Clone the repository from github git clone https://github.com/klabhub/EFMouse.git
Analyzing results with reference to the Allen mouse atlas requires the open-source stand-alone FSL package. We recommend using FSL 6.7.0 onwards. (FSL applies a transformation to the simulation results to map them to the Allen atlas.)
To get started, open montage_4x1.mlx or montage_1x1.mlx in Matlab and follow the compute pipeline, the analysis suggestions, and for additional options look up the help for each of the functions used in the tutorial.