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Helper modules to do image registration for Imagedata Series objects.

Available modules

NPreg

NPreg by Erlend Hodneland is implemented in Python, and available as a self-supported PyPi package. There are three implementations of NPreg:

  • Pure Python/NumPy code. Source code will run on any Python platform.

  • Cython code. Binary code compiled for supported platforms.

  • CuPy/CUDA code. Source code which will run on platforms with a working CuPy and CUDA Toolkit.

FSL

FSL (https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FSL) has several methods for image registration. Using FSL image registration from Python requires the FSL interface from nipype, as well as a the FSL executables. Each FSL method may have different requirements. The common factor is that FSL methods will read and write NIfTI image files.

A function register_fsl is provided here. This function will register a moving Series to a fixed Series. The default registration method is fsl.MCFLIRT. The function will accept other registration methods.

ITK-Elastix

The popular Elastix GUI is based on the C++ ITK image registration routines. Like the FSL methods, there are numerous Elastix methods available, all with different requirements. The itk-elastix (https://github.com/InsightSoftwareConsortium/ITKElastix) Python library is one particular interface to the Elastix/ITK routines.

Prerequisites

NPreg on CUDA GPU

imagedata-registration will benefit from a CUDA GPU. If this is available, install CuPy (https://docs.cupy.dev).

FSL

The imagedata-registration FSL module is a wrapper around the official FSL tools. A native FSL installation is required on the host computer.

ITK-Elastix

ITK-Elastix is installed automatically as a dependency for this package.

Installation

pip install imagedata-registration

Examples

NPreg examples

FSL examples

ITK-Elastix examples

Project links

Data verified by PyPI on Sep 8, 2026
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Credits

Author: Erling Andersen

Maintainer: Erling Andersen

GitHub Statistics

Data verified by PyPI on Sep 8, 2026
The GitHub source repository was provided by the project maintainers and verified by PyPI at the time of upload. Stars, forks, and open issues/PRs are derived from that repository and have not been independently verified.

License expression

MIT
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Requires

Python <3.15, >=3.10

Tags

python medical imaging image registration

Classifiers

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