Registration#

What is the optimal setting to register the images to an atlas?

  • Transformation type

  • Metric type

  • Optimizer type

  • Deep learning for image registration

Materials#

  • pymia.filtering.registration

  • P. Viola and W. M. I. Wells, Alignment by maximization of mutual information, Proc. IEEE Int. Conf. Comput. Vis., vol. 24, no. 2, pp. 16–23, 1995.

  • P. Cattin and V. Roth, Biomedical Image Analysis, 2016. [Online]. Available: https://miac.unibas.ch/BIA/ [Accessed: 08-Sep-2020].

  • M.-M. Rohé, M. Datar, T. Heimann, M. Sermesant, and X. Pennec, “SVF-Net: Learning Deformable Image Registration Using Shape Matching,” in Medical Image Computing and Computer Assisted Intervention − MICCAI 2017: 20th International Conference, Quebec City, QC, Canada, September 11-13, 2017, Proceedings, Part I, Springer International Publishing, 2017, pp. 266–274.

  • SimpleITK Notebooks: See chapters 60-67

  • ITK Software Guide, Book 2: In C++ but with a thorough description

Tools#

There exist various tools for registration besides the implemented code for registration:

  • 3D Slicer: Open source software which also includes registration.

  • ANTs: Advanced Normalization Tools, which come with registration algorithms.

  • NiftyReg: Rigid, affine and non-linear registration of medical images.

  • SimpleElastix: An extension of SimpleITK.