OrientationPy is the pythonic successor to the well-loved OrientationJ Fiji Plugin (github) from the BIG (Biomedical Imaging Group) in EPFL. It is a library that takes in 2D images or 3D volumes and computes the orientation of the greylevels. A key step is the computation of image gradients, for which we offer a number of different techniques.
Please visit the OrientationPy online docs.
Highlights
Please see the Example Gallery for some small examples of the use of the code, allowing the computation of orientations maps like this:
Other noteworthy python projects
Other orientation or structure tensor software that we’re aware of in python:
skimage.feature.structure_tensor: Sobel filter for gradient
structure-tensor: Only using finite differences for gradient
pynamix.measure.orientation_map: FFT-based approach
PyTextureAnalysis: 2D orientation package with overlay rendering
Acknowledgements
The initial prototype was coded by Alexandru Vasile during a 6-week visit to the EPFL Center for Imaging, supported by Mariana Verezhak from PSI
We used some of this data for testing: https://zenodo.org/record/5483719#.Yyra4vFBy2A
We initialised this repository from a cookie-cutter: https://github.com/Nekroze/cookiecutter-pypackage
History
0.3.0.0 (2023-08-07) Closed form solution for eigenvalue decomposition
0.2.0.4 (2023-01-20) Anisotropy of voxel sizes implemented
0.2.0.3 (2023-01-13) Moved code to /src/orientationpy so it gets packaged?
0.2.0.2 (2023-01-13) Moved code to /src so it gets packaged?
0.2.0.1 (2023-01-13) Moved to pyproject.toml
0.2.0.0 (2023-01-13) First version on pip (non-working due to requirements.txt)
2 maintainers
Metadata
2 maintainers
Release files for orientationpy 0.3.1
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