ODTbrain

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ODTbrain provides image reconstruction algorithms for O\ ptical D\ iffraction T\ omography with a B\ orn and R\ ytov A\ pproximation-based I\ nversion to compute the refractive index (n\ ) in 2D and in 3D.

Documentation

The documentation, including the reference and examples, is available at odtbrain.readthedocs.io <https://odtbrain.readthedocs.io/en/stable/>__.

Installation

::

pip install odtbrain

Testing

After cloning into odtbrain, create a virtual environment::

virtualenv --system-site-packages env
source env/bin/activate

Install ODTbrain in editable mode::

pip install -e .

Running an example::

python examples/backprop_from_fdtd_2d.py

Running tests::

pip install pytest
pytest tests

.. |PyPI Version| image:: https://img.shields.io/pypi/v/odtbrain.svg :target: https://pypi.python.org/pypi/odtbrain .. |Tests Status| image:: https://img.shields.io/github/actions/workflow/status/RI-Imaging/ODTbrain/check.yml :target: https://github.com/RI-Imaging/ODTbrain/actions?query=workflow%3AChecks .. |Coverage Status| image:: https://img.shields.io/codecov/c/github/RI-imaging/ODTbrain/master.svg :target: https://codecov.io/gh/RI-imaging/ODTbrain .. |Docs Status| image:: https://readthedocs.org/projects/odtbrain/badge/?version=latest :target: https://readthedocs.org/projects/odtbrain/builds/