CS598 Deep Learning for Healthcare - Final Project - DeepMicro: Deep Representation Learning for Disease Prediction based on Microbiome Data

This repository implements Oh, M., & Zhang, L. (2020). DeepMicro: deep representation learning for disease prediction based on microbiome data. Scientific reports, 10(1), 6026..

Video

CS598 Team 71 Final Project Presentation

Prerequisites

Python version 3.10.12

Install Packages

1. Clone the repository:

git clone https://github.com/ZKingQ/CS598-DLH-SP24.git

2. Navigate to the project directory:

cd CS598-DLH-SP24

3. Install the required packages from the requirements.txt

pip install -r requirements.txt

Training

Follow the steps outlined in the DLH_Team_71_PyTorch.ipynb notebook to run the project in Run Experiments section . Make sure you have installed and downloaded all the required packages and datasets.

run_experiment()

Evaluation

The evaluation codes are embedded in the classification function and the evaluation metrics are saved in path \result\.

Contributing

Contributions are welcome!

License

This project is licensed under the MIT License.