Quickstart

Installation

Install cov3d with pip:

pip install git+https://github.com/rbturnbull/cov3d.git

Training

To train cov3d, use this command:

cov3d train --directory ./scans

The training data and the two CSV files are part of the COV19-CT-DB Database which is available from MIA-COV19D workshop team.

The default hyperparameters for training can be overridden using the command-line interface. All options for training the model can be seen with the command:

cov3d train --help

Also see the training options in the Command Line Interface documentation.

Inference

If you have a trained model, you can infer the presence and severity of COVID19 from a CT scan with the command:

cov3d infer --pretrained <path/to/model> --scan <path/to/ct-scan>

All options for inference can be found with the command:

cov3d infer --help

Also see the inference options in the Command Line Interface documentation.