MedicalConceptsExplorer

Local app for the exploration of the closest medical concept given a specific text input.

Instructions:
download all the files in a directory on your computer, from the directory you now just need to:

1. Create and activate a Python virtual environment:

python -m venv venv
source venv/bin/activate

2. Install required libraries:

pip install --upgrade pip
pip install -r requirements.txt

3. Initialize required components locally.
   

pre-calculate embeddings (GatorTron model as default)

python PreComputeEmbeddings.py

Otherwise pre-calculate embeddings from multiple or all available models, like this:

python PreComputeEmbeddings.py --model all
python PreComputeEmbeddings.py --model bridge gatortron

Note: if you have it, nmove and unzip the BRIDGE model (in ./models folder)

4. Start the application:

streamlit run WebApp.py

Versions

Version 1

• Embedding model: GatorTron, BRIDGE
• Objective: Look for closest ICD-10-CM concept in the model embedding space