A package to read, write, and crop OCT .vol files.
Project description
OCTVol
A package to work with optical coherence tomography .vol raw files from Heidelberg Engineering Spectralis device, providing functionalities to read, write, and crop these files.
The codes in this package are primarily derived from their MATLAB implementations, available as part of the open-source segmentation pipeline SAMIRIX.
In addition to unit tests in the tests directory, extensive testing has been performed on all methods of the OCTVol class.
Installation
Install this package using pip:
pip install oct-vol
Usage
Example usage in Python:
from OCTVol import OCTVol
oct_vol = OCTVol(r"</path-to-vol-file.vol>")
oct_vol.crop_vol(crop_size=4)
oct_vol.write_vol(r"</destination-file-path.vol>")
Requirements
The package was developed with Python 3.9.7 and numpy 1.20.3. It has been tested successfully with Python 3.5 and above.
Contact
For inquiries, please contact Amir Motamedi at seyedamirhosein.motamedi(at)charite.de.
License
Refer to LICENSE.txt for licensing details.
Related Projects
Check out OCT-Converter, a package for various OCT file formats from different manufacturers, by Mark Graham at King's College London. Available on PyPi.
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