A full-stack clinical knowledge graph application built on top of the BODHI ontology by Eka Care.

Stack: FastAPI · React (Vite + TypeScript) · Neo4j 5.x · Docker Compose

Data licensed under CC BY-NC 4.0 — non-commercial use only. Credit: Eka Care.

The BODHI ontology data is included as a git submodule (see section below). Always clone with:

git clone --recurse-submodules https://github.com/pcmedsinge/bodhi_app.git

If you already cloned without --recurse-submodules, fetch the submodule manually:

git submodule update --init --recursive

bodhi_app/
├── backend/            # FastAPI app (Neo4j queries, REST endpoints)
│   ├── main.py
│   ├── db.py
│   ├── Dockerfile
│   ├── requirements.txt
│   └── .env.example    # Copy to .env and fill in credentials
├── frontend/           # React + Vite dashboard
│   ├── src/
│   ├── Dockerfile
│   └── vite.config.ts
├── neo4j/
│   ├── import/         # Cypher import scripts (bodhi_s.cypher, bodhi_m.cypher)
│   └── plugins/
├── BODHI/              # Upstream ontology data (git submodule → eka-care/BODHI)
├── scripts/
│   └── neo4j.sh        # Helper to run cypher-shell queries
└── docker-compose.yml

cp backend/.env.example backend/.env   # set credentials if needed
docker compose up --build

On first run, import the ontology data into Neo4j:

docker exec neo4j-bodhi cypher-shell -u neo4j -p bodhi123 -f /import/bodhi_s.cypher
docker exec neo4j-bodhi cypher-shell -u neo4j -p bodhi123 -f /import/bodhi_m.cypher

The BODHI/ folder is the upstream ontology source from Eka Care. It is not copied into this repo — instead it is tracked as a git submodule. This means:

• Only a pointer (commit hash) to the external repo is stored here, not the actual files.
• The version of the ontology you are using is always explicit and reproducible.
• Updates from upstream are pulled deliberately, not silently.

git submodule status
# output example:
# a3f82c1 BODHI (heads/main)
# the hash is the exact upstream commit your project is pinned to

cd BODHI
git pull origin main          # pull latest from eka-care/BODHI
cd ..
git add BODHI
git commit -m "chore: update BODHI submodule to latest upstream"
git push

cd BODHI
git checkout v2.0.0           # or any commit hash
cd ..
git add BODHI
git commit -m "chore: pin BODHI submodule to v2.0.0"
git push

git pull
git submodule update --recursive

Copy backend/.env.example to backend/.env:

NEO4J_URI=bolt://localhost:7687
NEO4J_USER=neo4j
NEO4J_PASSWORD=changeme

When running via Docker Compose, these are injected automatically from docker-compose.yml and point to the neo4j service name instead of localhost.

Application code: MIT
BODHI ontology data (BODHI/): CC BY-NC 4.0 — Eka Care