👝 COTOMKA: Medical CT Dataset Tools

COTOMKA is a simple python package for storage and pre-processing of medical computed tomography (CT) datasets. It provides unified interfaces and tools for pre-processing, saving and loading CT scans and their annotations (segmentation masks, etc.).

Installation

1. Clone the repository and install the package:

   git clone https://github.com/mishgon/cotomka.git && cd cotomka && pip install -e .

2. If you encounter issues with the opencv library, run:

   pip uninstall opencv-python && pip install opencv-python-headless

Configuration

Specify the root directory for datasets by creating a config file at ~/.config/cotomka/cotomka.yaml with the following content:

root_dir: /path/to/your/dataset/directory

Replace /path/to/your/dataset/directory with your desired location.

Usage

TODO: add usage example.

License

COTOMKA is licensed under the MIT License. See the LICENSE file for details.