Par0060 - elastix

Registration Description

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

Image data


The registration was used to align organs in the abdomen of sequential cine-MR dynamics to the reference dynamic, randomly chosen from the cine after entering the steady-state. This registration was used to obtain deformable intrafraction motion from 2D cine-MR images as a potential deep learning ground-truth to learn deformtion vector fields.

Registration Settings

For parameter files see the Elastix Model Zoo repository on GitHub.

elastix version: 4.800

Command line call:

elastix -f  -m  -p param_rigid.txt -p param_affine.txt -p param_bspline.txt -out

where is the path to fixed image, the reference cine MRI dynamic. The is the path to a cine-MR dynamic of the same imaging session. is the output directory.

Known issues


Published in

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:

© 2020 Viktor van der Valk