elastixLogo.gif Model Zoo

A Model Zoo for parameter files used for image registration with Elastix, SimpleElastix or ITKElastix in various domains. Parameter files can be uploaded via the GitHub repository.

Par0037

intra-subject; translational registration; mutual information

Chest/Lung CT
Par0013

registration of interventional x-ray data to 3D CT for motion estimation, patient positioning or image guidance

Head & Neck 2D 3D CT X-Ray
Par0019

inter patient; rigid and B-spline transformation, advanced mean square and normalized correlation metrics

Head & Neck 3D CT
Par0028

intra patient; rigid + B-spline transformation; several B-pline knot spacings; synthesized head and neck phantoms

Head & Neck 3D CT
Par0035

intra-subject, inter-subject; mono-modal and multi-modal; rigid, affine and B-spline transformations; mean square difference, normalized correlation, mutual information

Brain Abdomen Chest/Lung 3D 4D CT Ultrasound MRI
Par0011

intrapatient (sometimes intra-sheep); B-spline transformation; normalized correlation

Chest/Lung 3D CT
Par0059

Intrapatient, B-spline transformation, mutual information, rigidity penalty

Pelvis 3D CT MRI
Par0044

intra-subject; multi-image; affine (Mutual Information) + multi-image B-spline transformation (Mutual Information and mean square difference);

Brain Cardiac CT
Par0012

motion estimation; (cyclic) B-spline transformation; variance over last dimension

Carotid Cardiac Chest/Lung 3D 4D CT MRI Ultrasound
Par0023

intrapatient; rigid + B-spline transformation; localized mutual information combined with bending energy penalty

Head & Neck CT MRI PET
Par0008

intrapatient; B-spline transformation; mutual information

Chest/Lung 3D CT
Par0049

intra-subject; B-spline transformation; Mattes mutual information

Chest/Lung 3D CT
Par0043

intra-subject; multi-resolution (4), rigid, Mutual Information metric (Mattes) with Adaptive Stochastic Gradient Descent optimizer

Prostate Pelvis 3D CT MRI
Par0058

Head-neck, lung and breast cancer patients acquired between 2016-2018. ...

Head & Neck Chest/Lung CT
Par0027

intra patient; rigid + B-spline transformation; mutual information, multi parametric mutual information

Head & Neck CT MRI PET
Par0004

intrapatient; rigid + B-spline transformation; mutual information

Chest/Lung 3D CT
Par0016

intrapatient; Multi B-spline transformation; sliding motion

Chest/Lung 3D CT
Par0054

intra-subject respiratory motion; B-spline transformation

Chest/Lung 3D CT
Par0015

intrapatient; B-spline transformation; several similarity metrics

Chest/Lung 3D CT
Par0007

intrapatient; B-spline transformation; mutual information

Chest/Lung 4D CT
Par0003

interpatient; affine + B-spline transformation; mutual information

Chest/Lung 3D CT
Par0014

intra-mouse; B-spline transformation; combination of normalized correlation and the Euclidean distance metric

3D CT
Name Image Properties Description Paper
Par0037 Chest/Lung CT intra-subject; translational registration; mutual information You Zhang, Fang-Fang Yin, Irina Vergalasova, Lei Ren, "Pilot Clinical Study of Orthogonal-view Phase-matched Digital Tomosynthesis for Lung Tumor Localization" _in preparation_ 2015]
Par0013 Head & Neck 2D 3D CT X-Ray registration of interventional x-ray data to 3D CT for motion estimation, patient positioning or image guidance I.M.J. van der Bom, S. Klein, M. Staring, R. Homan, L.W. Bartels, J.P.W. Pluim, "Evaluation of optimization methods for intensity-based 2D-3D registration in X-ray guided interventions", in: SPIE Medical Imaging: Image Processing, SPIE Press, vol. 7962, pp. 796223-1 - 796223-15, 2011.
Par0019 Head & Neck 3D CT inter patient; rigid and B-spline transformation, advanced mean square and normalized correlation metrics V. Fortunati, R.F. Verhaart, F. van der Lijn, W.J. Niessen, J.F. Veenland, M.M. Paulides and T. van Walsum, Tissue segmentation of head and neck CT images for treatment planning: A multiatlas approach combined with intensity modeling, Medical Physics 40(7), 071905 (2013)][1]
Par0028 Head & Neck 3D CT intra patient; rigid + B-spline transformation; several B-pline knot spacings; synthesized head and neck phantoms Charlotte L. Brouwer, Roel G.J. Kierkels, Aart A. van 't Veld, Nanna M. Sijtsema, and Harm Meertens, The effects of computed tomography image characteristics and knot spacing on the spatial accuracy of B-spline deformable image registration in the head and neck geometry, Radiation Oncology 2014, 9:169 ](Brouwer_et_al._-_2014_-_The_effects_of_computed_tomography_image_characteristics_and_knot_spacing_on_the_spatial_accuracy_of_B-pline_def.pdf)
Par0035 Brain Abdomen Chest/Lung 3D 4D CT Ultrasound MRI intra-subject, inter-subject; mono-modal and multi-modal; rigid, affine and B-spline transformations; mean square difference, normalized correlation, mutual information Y. Qiao, B. van Lew, B.P.F. Lelieveldt and M. Staring, "Fast Automatic Step Size Estimation for Gradient Descent Optimization of Image Registration," IEEE Transactions on Medical Imaging, in press.
Par0011 Chest/Lung 3D CT intrapatient (sometimes intra-sheep); B-spline transformation; normalized correlation Marius Staring, Stefan Klein, Johan H.C. Reiber, Wiro J. Niessen and Berend C. Stoel, Pulmonary Image Registration With `elastix` Using a Standard Intensity-Based Algorithm, EMPIRE10 workshop at MICCAI.
Par0059 Pelvis 3D CT MRI Intrapatient, B-spline transformation, mutual information, rigidity penalty Florkow et al. (2019), Deep learning-based MR-to-CT synthesis: the influence of varying gradient echo-based MR images as input channels, under submission
Par0044 Brain Cardiac CT intra-subject; multi-image; affine (Mutual Information) + multi-image B-spline transformation (Mutual Information and mean square difference); None
Par0012 Carotid Cardiac Chest/Lung 3D 4D CT MRI Ultrasound motion estimation; (cyclic) B-spline transformation; variance over last dimension Nonrigid registration of dynamic medical imaging data using nD+t B-splines and a groupwise optimization approach, C.T. Metz, S. Klein, M. Schaap, T. van Walsum and W.J. Niessen, Medical Image Analysis, in press](http://dx.doi.org/10.1016/j.media.2010.10.003)
Par0023 Head & Neck CT MRI PET intrapatient; rigid + B-spline transformation; localized mutual information combined with bending energy penalty S. Leibfarth , D. Mönnich, S. Welz, C. Siegel, N. Schwenzer, H. Schmidt, D. Zips, D. Thorwarth, A strategy for multimodal deformable image registration to integrate PET/MR into radiotherapy treatment planning, Acta Oncologica 52, 1353-1359 (2013)
Par0008 Chest/Lung 3D CT intrapatient; B-spline transformation; mutual information K. Murphy, B. van Ginneken, J.P.W. Pluim, S. Klein, and M. Staring, Semi-Automatic Reference Standard Construction for Quantitative Evaluation of Lung CT Registration, in MICCAI, ser. Lecture Notes in Computer Science, vol. 5242, 2008, pp. 1006 – 1013.
Par0049 Chest/Lung 3D CT intra-subject; B-spline transformation; Mattes mutual information Sokooti, et al. (2017), Accuracy Estimation for Medical Image Registration Using Regression Forests.
Par0043 Prostate Pelvis 3D CT MRI intra-subject; multi-resolution (4), rigid, Mutual Information metric (Mattes) with Adaptive Stochastic Gradient Descent optimizer Maspero M, et al. (2017), Quantification of confounding factors in MRI-based dose calculations as applied to prostate IMRT. Phys Med Biol. 62(3)
Par0058 Head & Neck Chest/Lung CT Head-neck, lung and breast cancer patients acquired between 2016-2018. ... Maspero M, Houweling AC, Savenije MH, van Heijst TC, Verhoeff JJ, Kotte AN, van den Berg CA. A single neural network for cone-beam computed tomography-based radiotherapy of head-and-neck, lung and breast cancer. Physics and Imaging in Radiation Oncology. 2020 Apr 1;14:24-31. doi:[https://doi.org/10.1016/j.phro.2020.04.002](https://doi.org/10.1016/j.phro.2020.04.002);
Par0027 Head & Neck CT MRI PET intra patient; rigid + B-spline transformation; mutual information, multi parametric mutual information V. Fortunati, R.F. Verhaart, F. Angeloni, A. van der Lugt, W.J. Niessen, J.F. Veenland, M.M. Paulides and T. van Walsum, Feasibility of Multimodal Deformable Registration for Head and Neck Tumor Treatment Planning, Int. J. Radiation Oncology Biology and physics 90, 85-93 (2014)
Par0004 Chest/Lung 3D CT intrapatient; rigid + B-spline transformation; mutual information M. Staring, S. Klein and J.P.W. Pluim, "A Rigidity Penalty Term for Nonrigid Registration," Medical Physics, vol. 34, no. 11, pp. 4098 - 4108, November 2007.
Par0016 Chest/Lung 3D CT intrapatient; Multi B-spline transformation; sliding motion V. Delmon, S. Rit, R. Pinho, and D. Sarrut, "Direction dependent B-splines decomposition for the registration of sliding objects", Proceedings of the Fourth International Workshop on Pulmonary Image Analysis, Toronto, Canada, pp. 45–55, 09/2011.][1]
Par0054 Chest/Lung 3D CT intra-subject respiratory motion; B-spline transformation Christopher L. Guy, Elizabeth Weiss, Gary E. Christensen, Nuzhat Jan, and Geoffrey D. Hugo, "CALIPER: A deformable image registration algorithm for large geometric changes during radiotherapy for locally advanced non-small cell lung cancer," Medical Physics, 45 (6), June 2018. doi.org/10.1002/mp.12891
Par0015 Chest/Lung 3D CT intrapatient; B-spline transformation; several similarity metrics M. Staring, M.E. Bakker, J. Stolk, D.P. Shamonin, J.H.C. Reiber, and B.C. Stoel, "Towards Local Progression Estimation of Pulmonary Emphysema using CT", Medical Physics, vol. 41, no. 2, pp. 021905-1 - 021905-13, 2014.
Par0007 Chest/Lung 4D CT intrapatient; B-spline transformation; mutual information K. Ding, J.E. Bayouth, J.M. Buatti, G.E Christensen, and J.M. Reinhardt, 4DCT-Based Measurement of Radiation Induced Changes in Pulmonary Function, submitted.
Par0003 Chest/Lung 3D CT interpatient; affine + B-spline transformation; mutual information S. Klein, M. Staring, K. Murphy, M.A. Viergever, J.P.W. Pluim, "`elastix`: a toolbox for intensity based medical image registration," IEEE Transactions on Medical Imaging, vol. 29, no. 1, pp. 196-205, 2010.
Par0014 3D CT intra-mouse; B-spline transformation; combination of normalized correlation and the Euclidean distance metric Baiker (2011), Automated Registration of Whole-Body Follow-Up MicroCT Data of Mice [1]

© 2020 Viktor van der Valk