⚙️ Installation Guide for TumorTwin

TumorTwin is tested with Python 3.11, and we recommend using a virtual environment for a clean setup.

Prerequisites

• Python (tested on Python 3.11)
• git
• A package manager like Anaconda or pip

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Option 1: Using Anaconda (recommended for most users)

1. Install Anaconda (if not already installed):
   https://docs.anaconda.com/anaconda/install

2. Create a new environment with Python 3.11:

conda create -n tumortwin python=3.11 anaconda

1. Activate the environment:

conda activate tumortwin

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Option 2: Using venv (lightweight setup)

1. Create a virtual environment:

python3.11 -m venv tumortwin-env

1. Activate it:

2. On macOS/Linux:

   source tumortwin-env/bin/activate
   

3. On Windows:

   .\tumortwin-env\Scripts\activate
   

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Install TumorTwin

1. Clone the repository:

git clone https://github.com/OncologyModelingGroup/TumorTwin.git
cd TumorTwin

1. Install dependencies:

2. Standard installation:

   pip install .
   

3. Development mode (editable install + dev tools):

   pip install -e ".[dev]"
   

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Optional: Running the Demo

Open HGG_Demo.ipynb or TNBC_Demo.ipynb in Jupyter, VS Code, Colab or your preferred IDE.

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