EIDORS: Electrical Impedance Tomography and Diffuse Optical Tomography Reconstruction Software

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EIDORS Examples

>>run /path/to/eidors3d/startup.m

EIDORS Image Reconstruction

• One-line starter program

• EIDORS Basics

• Breathing baby (from Wikipedia page)

• Solving a forward model with EIDORS

• Solving a 3D forward model with EIDORS

• Viewing surface and internal voltage on 3D shape

• Basic Image reconstruction

• Reconstruction of real and complex components

• Basic 3D Image reconstruction

• Basic Absolute 3D Image reconstruction

• Absolute and difference solvers

• Sensitivity of EIT and Reconstruction

• Compare 2D Image reconstruction

• Compare 3D Image reconstruction

• Compare Algorithm Performance (GREIT parameters)

• GN reconstruction vs Backprojection

• Conductivity contrasts and shape

• Effect of electrode contact impedance

• Higher order 2D FEM solvers (quadratic and cubic)

• Higher order 3D FEM solvers (quadratic)

• Convergence study of higher order FEM and contact impedance

More advanced Image Reconstruction

• Nodal Solvers

• Iterative GN reconstruction 3D

• Total Variation reconstruction 2D

• Total Variation: choice of hyperparameters

• Approaches to choose hyperparameter: NF, L-curve, SNR

• Temporal image reconstruction of moving objects

• Correct timing of acquired data for effect of serial data collection

• Managing Electrode Errors

• Transient effects with time domain current stimulus

• Absolute image reconstruction

• Exploration of "Cheating" in image reconstruction

Dual model image reconstruction

• Introduction to dual models

• Partially overlapping dual models

• "2½D" Image Reconstruction

• Cross section of a pipe flow

• Reconstruction of a layer of a 3D model

• Dual models reconstructing onto a rectangular pixelization

• 3D−3D Dual Models

Image Reconstruction with electrode movement

• Reconstruct Image and Electrode movement in 2D

• Reconstruct Image and Electrode movement in 3D

Unexpected Effects

• Opposite Stimulation and Measurement produces mirror images

• Conformal Mapping deformations of boundary shape

• Imaging with absolute value of measurements

• Anisotropic deformations of medium

• "Banana-shaped" minima region

EIDORS data structures and models

• Basic EIDORS Data structures

• Modifying EIDORS models

• EIDORS Variables

• EIDORS Colours

• Customizing EIDORS

Application: EIT of the thorax

• Lung recruitment in ARDS (human) [data from Wolf et al (2012)]

• PEEP trial after lung injury (pig) [data from Frerichs et al (2003)]

• Changes in ventilation after lung injury (pig) [data from Frerichs et al (1998)]

• Images of neonate lungs [data from Heinrich et al (2006)]

• Images of lungs (Human shallow breathing)

• Images of stomach emptying

Application: EIT for geophysics

• Electrical images of Pont Péan region

• EIT of borehole

• Simulation of EIT in a tunnel

• Simulation of 3D surface electrode system

• Geophysical stimulation patterns aud pseudo-section representation

Pre-packaged FEM Models

• Common FEM models

• FEM model library

• Model Reduction: FEM to Resistor Mesh

FEM Modelling with Netgen

• EIDORS cylindrical models with netgen

• EIDORS elliptical models with netgen

• Geometric models interface

• EIDORS extruded (with 2D contours) models netgen

• EIDORS model of human thorax using netgen

• EIDORS model of pig thorax using netgen

• View of an electric fish in a tank

• EIDORS general (arbitrary) models with netgen

• Using model-internal electrodes in EIDORS

• FEM accuracy vs. model size

• EIDORS fwd simulations with netgen

• Explore effect of meshsize with netgen

FEM Modelling with Distmesh

• Simple 2D Distmesh

• Circular 2D Models with Distmesh

• Simulate moving target in 2D: Approach #1

• Simulate moving target in 2D: Approach #2

Direct FEM Modelling

• Prepackaged 2D 'common' models

• 2D Geophysical model

• Splitting and joining models

Visualization

• Visualization using Mayavi

GREIT reconstruction matrix

• GREIT Reconstruction for adult human model geometries

• GREIT Reconstruction for neonate model geometries

• GREIT Reconstruction Examples

• Calculate GREIT Reconstruction Matrix

• GREIT in 3D on a cylindrical tank

• GREIT in 3D on tidal breathing in a horse

• GREIT in 3D using voxel model

• GREIT Reconstruction for different model geometries

• GREIT Reconstruction for two layer electrodes

• GREIT Reconstruction for pig thorax model geometries

GREIT documents

• Paper (2009): GREIT: a unified approach to 2D linear EIT reconstruction of lung images and, Final Draft

GREIT test parameters and figures of merit

• GREIT Test Parameters

• Compare Algorithm Performance (GREIT parameters)

• GREIT Reconstruction Matrix

• Saving EIDORS images for analysis by IBEX software

• Saving GREIT Matrices to the AUSPEX format

• Older GREIT Tutorials