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Zeffiro Forward and Inverse Interface for Brain Imaging

version 2.1.1 (72.3 MB) by Sampsa Pursiainen
Interface for using finite elements in electromagnetic brain imaging applications

9 Downloads

Updated 12 Mar 2019

GitHub view license on GitHub

Zeffiro Interface Forward and Inverse Interface for Electromagnetic Brain Imaging is an open source code package constituting a simple tool for finite element (FE) based forward and inverse simulations in EEG/MEG and other brain imaging applications, for example, Electrical Impedance Tomography (EIT). With Zeffiro, one can segment a realistic multilayer geometry and generate a finite element mesh, if triangular surface grids (in ASCII DAT file format) are available.

The name Zeffiro is Italian for 'a gentle breeze'. A graphics card can be applied to speed up the computations. See: "He, Q., Rezaei, A., & Pursiainen, S. (2018). Zeffiro user interface for electromagnetic brain imaging: a GPU accelerated FEM tool for forward and inverse computations in Matlab. arXiv:1811.07717." https://arxiv.org/pdf/1811.07717.pdf

The name Zeffiro is Italian for 'a gentle breeze'. A graphics card can be applied to speed up the computations. As a special feature one can generate a time-lapse of inverse estimates for a given data sequence, see:

https://github.com/sampsapursiainen/zeffiro_interface/blob/master/data/media/meg_time_lapse.mp4

The essential mathematical techniques have been reviewed and validated in: "Miinalainen, T., Rezaei, A., Us, D., Nüßing, A., Engwer, C., Wolters, C. H., & Pursiainen, S. (2019). A realistic, accurate and fast source modeling approach for the EEG forward problem. NeuroImage, 184, 56-67." and "Pursiainen, S. (2012). Raviart–Thomas-type sources adapted to applied EEG and MEG: implementation and results. Inverse Problems, 28(6), 065013." The source model has been introduced in "Pursiainen, S., Vorwerk, J., & Wolters, C. H. (2016). Electroencephalography (EEG) forward modeling via H (div) finite element sources with focal interpolation. Physics in Medicine & Biology, 61(24), 8502." and the inversion method in "Calvetti, D., Hakula, H., Pursiainen, S., & Somersalo, E. (2009). Conditionally Gaussian hypermodels for cerebral source localization. SIAM Journal on Imaging Sciences, 2(3), 879-909.". A more detailed introduction to the essential features and the scientific methodology of the interface can be found in:

https://github.com/sampsapursiainen/zeffiro_interface/wiki

If you are interested to develop the package, please contact sampsa.pursiainen@tut.fi.

Cite As

Sampsa Pursiainen (2019). Zeffiro Forward and Inverse Interface for Brain Imaging (https://www.github.com/sampsapursiainen/zeffiro_interface), GitHub. Retrieved .

Comments and Ratings (1)

More inverse tools.

Updates

2.1.1

Parcellation tool.

2.1.0

18-compartments, options to merge and invert meshes, when importing.

2.0.6

Missing plugin file added.

2.0.5

Flash-free time-lapses for r2018b and above.

2.0.4

Plugin utility added.

2.0.3

Bugs fixed.

2.0.2

Window configuration

2.0.1

Bugs fixed

2.0

New main window configuration.

1.0.12

New menus

1.0.11

Description and 3D plots.

1.0.10

Bugs corrected.

1.0.9

Corrected plot mesh routine.

1.0.8

Description

1.0.7

EIT and multiresolution solvers

1.0.6

Description

1.0.5

Gradiometer solver for MEG + EIT solver

1.0.4

Complete Electrode Model

1.0.3

More inverse tools.

1.0.2

Inverse tools update.

1.0.1

New inverse tools added.

MATLAB Release Compatibility
Created with R2018a
Compatible with R2013a to R2018a
Platform Compatibility
Windows macOS Linux

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