EIT-MESHER – Segmented FEM Mesh Generation and Refinement

Thomas Dowrick; James Avery; Mayo Faulkner; David Holder; Kirill Aristovich

doi:10.5334/jors.321

Abstract

EIT-MESHER (https://github.com/EIT-team/Mesher) is C++ software, based on the CGAL library, which generates high quality Finite Element Model tetrahedral meshes from binary masks of 3D volume segmentations. Originally developed for biomedical applications in Electrical Impedance Tomography (EIT) to address the need for custom, non-linear refinement in certain areas (e.g. around electrodes), EIT-MESHER can also be used in other fields where custom FEM refinement is required, such as Diffuse Optical Tomography (DOT).

Funding statement: This work was supported by an ARCHER eCSE grant (eCSE13-11). James Avery was supported by the NIHR Imperial BRC.

References

1Gärtner, B, Veltkamp, R, Rineau, L and Yvinec, M 2007 A generic software design for Delaunay refinement meshing. Comput. Geom., 38(1): 100–110. DOI: 10.1016/j.comgeo.2006.11.008
Back to article
2Liu, A and Joe, B Jun. 1994 Relationship between tetrahedron shape measures. BIT, 34(2): 268–287. DOI: 10.1007/BF01955874
Back to article
3Aristovich, K Y, dos Santos, G S, Packham, B C and Holder, D S Jun. 2014 A method for reconstructing tomographic images of evoked neural activity with electrical impedance tomography using intracranial planar arrays. Physiol. Meas., 35(6): 1095–109. DOI: 10.1088/0967-3334/35/6/1095
Back to article
4Fang, Q and Boas, D A 2009 Tetrahedral mesh generation from volumetric binary and grayscale images. In: Proceedings – 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009, 1142–1145.
Back to article
5Adler, A and Lionheart, W R B May 2006 Uses and abuses of EIDORS: an extensible software base for EIT. Physiol. Meas., 27(5): S25–42. DOI: 10.1088/0967-3334/27/5/S03
Back to article
6Schweiger, M and Arridge, S 2014 The Toast++ software suite for forward and inverse modeling in optical tomography. J. Biomed. Opt., 19(4): 040801. DOI: 10.1117/1.JBO.19.4.040801
Back to article
7Avery, J, Aristovich, K, Low, B and Holder, D Jun. 2017 Reproducible 3D printed head tanks for electrical impedance tomography with realistic shape and conductivity distribution. Physiol. Meas., 38(6): 1116–1131. DOI: 10.1088/1361-6579/aa6586
Back to article
8Witkowska-Wrobel, A, Aristovich, K, Faulkner, M, Avery, J and Holder, D Jun. 2018 Feasibility of imaging epileptic seizure onset with EIT and depth electrodes. Neuroimage, 173(February): 311–321. DOI: 10.1016/j.neuroimage.2018.02.056
Back to article
9Jehl, M, Dedner, A, Betcke, T, Aristovich, K, Klofkorn, R and Holder, D Jan. 2015 A Fast Parallel Solver for the Forward Problem in Electrical Impedance Tomography. IEEE Trans. Biomed. Eng., 62(1): 126–137. DOI: 10.1109/TBME.2014.2342280
Back to article
10Faulkner, M, Hannan, S, Aristovich, K, Avery, J and Holder, D Sep. 2018 Feasibility of imaging evoked activity throughout the rat brain using electrical impedance tomography. Neuroimage, 178(February): 1–10. DOI: 10.1016/j.neuroimage.2018.05.022
Back to article
11Avery, J, Runciman, M, Darzi, A and Mylonas, G P 2019 Shape Sensing of Variable Stiffness Soft Robots using Electrical Impedance Tomography. In: IEEE International Conference on Robotics and Automation. DOI: 10.1109/ICRA.2019.8793862
Back to article
12Silvera-Tawil, D, Rye, D, Soleimani, M and Velonaki, M 2015 Electrical impedance tomography for artificial sensitive robotic skin: A review. IEEE Sens. J., 15(4): 2001–2016. DOI: 10.1109/JSEN.2014.2375346
Back to article
13Coevoet, E, Escande, A and Duriez, C Jul. 2017 Optimization-Based Inverse Model of Soft Robots With Contact Handling. IEEE Robot. Autom. Lett., 2(3): 1413–1419. DOI: 10.1109/LRA.2017.2669367
Back to article

EIT-MESHER – Segmented FEM Mesh Generation and Refinement

Abstract

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