/MLPA

Creating a digital twin of cancer (multiscale, spatial transcriptomic, and temporal data)

Primary LanguageMATLAB

MLPA: Creating a Digital Twin of Cancer

Overview

MLPA (Machine Learning for Precision Oncology) is a project aimed at developing a digital twin of cancer by integrating multiscale, spatial transcriptomic, and temporal data. This repository includes MATLAB scripts and data files designed to model cancer progression and response to treatments.

Contents

  • Scripts:

    • camodel.m: Main model script for cancer simulation.
    • contour.m: Generates contour plots for data visualization.
    • drug.m: Models drug interactions and effects on cancer cells.
    • errorfinder.m: Identifies and corrects errors in the dataset.
    • Additional scripts for data processing and analysis.

  • Data:

    • pathways.csv: Contains pathway information for analysis.
    • tumor_analysis_results.csv: Results from tumor analysis.

Getting Started

  1. Prerequisites:

    • MATLAB (version XYZ or later)

  2. Installation:

    • Clone this repository: 
      git clone https://github.com/jamesgu888/MLPA.git
    • Add the repository to your MATLAB path: 
      addpath('path/to/MLPA');

  3. Usage:

    • Run the main model script: 
      camodel
    • Generate visualizations: 
      contour

Contributing

Contributions are welcome! Please fork this repository and submit pull requests.

Contact

For questions or support, please open an issue or contact the project maintainers at [jamesguru77@gmail.com] or [jakechen@uab.edu].