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Step 1: Install Miniconda
Installation guide: https://docs.conda.io/projects/miniconda/en/latest/index.html#quick-command-line-install
Step 2: Clone the repository and change the current working directory
git clone https://github.com/ViacheslavDanilov/oct_segmentation.git
cd oct_segmentation
Step 3: Set up an environment and install the necessary packages
chmod +x make_env.sh
./make_env.sh
Specify the data_path
and save_dir
parameters in the predict.yaml configuration file. By default, all images within the specified data_path
will be processed and saved to the save_dir
directory.
To run the pipeline, execute predict.py from your IDE or command prompt with:
python src/models/smp/predict.py
All essential components of the study, including the curated dataset and trained models, have been made publicly available:
Please cite OUR PAPER if you found our data, methods, or results helpful for your research:
Danilov V.V., Laptev V.V., Klyshnikov K.Yu., Ovcharenko E.A. (2024). PAPER TITLE. Journal Title. DOI: TO.BE.UPDATED.SOON
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