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.

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

Par0039

intra-subject; affine or B-spline transformation; groupwise registration; PCA metrics

Brain Carotid Abdomen 2D 3D 4D MRI

Par0018

interpatient; several transformation models; mutual information based similarity metrics

Carotid 2D 3D MRI

Par0060

Intapatient, rigid+ affine+ b-spline transformation, mutual information

Abdomen Head & Neck 2D MRI

Par0063

"inter/intra-patient; affine transformation; mutual information"

Brain 2D X-Ray

Par0036

intra-subject, inter-station; affine; normalized correlation

2D MRI

Name	Image Properties	Description	Paper
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.
Par0039	Brain Carotid Abdomen 2D 3D 4D MRI	intra-subject; affine or B-spline transformation; groupwise registration; PCA metrics	/j.media.2015.12.004 PCA-based groupwise image registration for quantitative MRI, W. Huizinga, D.H.J. Poot, J.-M. Guyader, R. Klaassen, B.F. Coolen, M. van Kranenburg, R.J.M. van Geunse, A. Uitterdijk, M. Polfliet, J. Vandemeulebroucke, A. Leemans, W.J. Niessena, S. Klein, Medical Image Analysis, in press]
Par0018	Carotid 2D 3D MRI	interpatient; several transformation models; mutual information based similarity metrics	Automatic Registration of Multispectral MR Vessel Wall Images of the Carotid Artery R. van 't Klooster, M. Staring, S. Klein, R.M. Kwee, M.E. Kooi, J. H. C. Reiber, B.P.F. Lelieveldt and R.J. van der Geest, International Society for Magnetic Resonance in Medicine, 2012
Par0060	Abdomen Head & Neck 2D MRI	Intapatient, rigid+ affine+ b-spline transformation, mutual information	Terpstra ML, Maspero M, D'Agata F, Stemkens B, Intven MP, Lagendijk JJ, Van den Berg CA, Tijssen RH. Deep learning-based image reconstruction and motion estimation from undersampled radial k-space for real-time MRI-guided radiotherapy. Physics in Medicine & Biology. 2020 July 30; 66(15). doi:[https://doi.org/10.1088/1361-6560/ab9358](https://doi.org/10.1088/1361-6560/ab9358).
Par0063	Brain 2D X-Ray	"inter/intra-patient; affine transformation; mutual information"	Su et al. (2020) autoTICI: Automatic Brain Tissue Reperfusion Scoring on 2D DSA Images of Acute Ischemic Stroke Patients (submitted)
Par0036	2D MRI	intra-subject, inter-station; affine; normalized correlation	O. Dzyubachyk, M. Staring, M. Reijnierse, B.P.F. Lelieveldt, and R.J. van der Geest. "Inter-Station Intensity Standardization for Whole-Body MR Data", Magnetic Resonance in Medicine 2017;77(1):422–433.](https://www.frontiersin.org/articles/10.3389/fninf.2017.00003/full)

Name

Image Properties

Description

Paper

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.

Par0039

Brain Carotid Abdomen 2D 3D 4D MRI

intra-subject; affine or B-spline transformation; groupwise registration; PCA metrics

/j.media.2015.12.004 PCA-based groupwise image registration for quantitative MRI, W. Huizinga, D.H.J. Poot, J.-M. Guyader, R. Klaassen, B.F. Coolen, M. van Kranenburg, R.J.M. van Geunse, A. Uitterdijk, M. Polfliet, J. Vandemeulebroucke, A. Leemans, W.J. Niessena, S. Klein, Medical Image Analysis, in press]

Par0018

Carotid 2D 3D MRI

interpatient; several transformation models; mutual information based similarity metrics

Automatic Registration of Multispectral MR Vessel Wall Images of the Carotid Artery R. van 't Klooster, M. Staring, S. Klein, R.M. Kwee, M.E. Kooi, J. H. C. Reiber, B.P.F. Lelieveldt and R.J. van der Geest, International Society for Magnetic Resonance in Medicine, 2012

Par0060

Abdomen Head & Neck 2D MRI

Intapatient, rigid+ affine+ b-spline transformation, mutual information

Terpstra ML, Maspero M, D'Agata F, Stemkens B, Intven MP, Lagendijk JJ, Van den Berg CA, Tijssen RH. Deep learning-based image reconstruction and motion estimation from undersampled radial k-space for real-time MRI-guided radiotherapy. Physics in Medicine & Biology. 2020 July 30; 66(15). doi:[https://doi.org/10.1088/1361-6560/ab9358](https://doi.org/10.1088/1361-6560/ab9358).

Par0063

Brain 2D X-Ray

"inter/intra-patient; affine transformation; mutual information"

Su et al. (2020) autoTICI: Automatic Brain Tissue Reperfusion Scoring on 2D DSA Images of Acute Ischemic Stroke Patients (submitted)

Par0036

2D MRI

intra-subject, inter-station; affine; normalized correlation

O. Dzyubachyk, M. Staring, M. Reijnierse, B.P.F. Lelieveldt, and R.J. van der Geest. "Inter-Station Intensity Standardization for Whole-Body MR Data", Magnetic Resonance in Medicine 2017;77(1):422–433.](https://www.frontiersin.org/articles/10.3389/fninf.2017.00003/full)