codebase-synapse

🧠 Codebase Synapse

Give your AI agent a deep understanding of your entire codebase.

An MCP server that indexes your codebase into a local knowledge graph with 52 AI tools — semantic search, call-graph traversal, git archaeology, blast-radius analysis, and more.

Works with Claude Code · Cursor · Windsurf · Zed · Any MCP client

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The Problem

AI coding agents (Claude, Cursor, etc.) are powerful — but they work with limited context. They can only see the files you open or feed them. Ask about call chains, architectural patterns, or blast-radius impact, and they guess.

Codebase Synapse fixes this. It indexes your entire repo into a local knowledge graph stored in SQLite, giving your AI agent real answers backed by structural analysis — not hallucinations.

How it works

graph LR

A["📁 Your Codebase"] -->|Tree-sitter| B["🧩 Parser"] B -->|Symbols & Edges| C["🕸️ Knowledge Graph"] C -->|SQLite| D["💾 Local DB"] D -->|52 MCP Tools| E["🤖 AI Agent"]

style A fill:#1a1b26,stroke:#7aa2f7,color:#c0caf5 style B fill:#1a1b26,stroke:#bb9af7,color:#c0caf5 style C fill:#1a1b26,stroke:#9ece6a,color:#c0caf5 style D fill:#1a1b26,stroke:#e0af68,color:#c0caf5 style E fill:#1a1b26,stroke:#f7768e,color:#c0caf5

⚡ Quick Start

1. Index your project (CLI, Zoekt-style)

codebase-synapse index /path/to/your/repo

Indexing runs as a separate CLI command and writes into ~/.codebase-synapse/codebase.db. The first index is the slow one; re-running it only re-indexes changed files. The MCP server never indexes — it only reads the pre-built index.

2. Start the MCP server

npx codebase-synapse

That's it. No Docker. No database setup. No cloud. The server starts via stdio and serves the pre-built index to your MCP client.

Configure your client

Claude Code / Claude Desktop

Add to your claude_desktop_config.json or mcp_servers.json:

{

"mcpServers": { "codebase-synapse": { "command": "npx", "args": ["-y", "codebase-synapse"] } } }

Cursor

Add to your .cursor/mcp.json:

{

"mcpServers": { "codebase-synapse": { "command": "npx", "args": ["-y", "codebase-synapse"] } } }

Other MCP clients

Any MCP client that supports stdio transport works. Just point it at:

npx -y codebase-synapse

✨ What It Does

🔍 Search & Discovery

🕸️ Knowledge Graph

🏗️ Architecture

🔬 Git Archaeology

🧠 Memory & Context

🛡️ Codebase Guard

Included as a bonus: `codebase-guard` is a PreToolUse hook for Claude Code that blocks writes to high-impact files until the agent runs impact_analysis first.

It uses PageRank scores and blast-radius data from the knowledge graph to identify architectural hubs. No more accidental edits to core files.

🔧 Technical Details

Supported Languages

Rust · Python · TypeScript · JavaScript · Go · Java · C# · PHP · C · C++

Architecture

src/

├── parser/ # Tree-sitter parsing & entity extraction ├── graph/ # Knowledge graph, PageRank, Leiden clustering ├── indexer/ # Repository indexing pipeline ├── search/ # BM25 full-text + vector cosine + hybrid RRF ├── embedding/ # Candle-based local embeddings (feature-gated) ├── memory/ # Persistent & session memory stores ├── mcp/ # MCP protocol transport + 52 tool handlers ├── git/ # Git archaeology, intent classification, hotspots ├── context/ # Budgeted context preparation for AI ├── cypher/ # Nom-based Cypher parser → SQL CTE planner ├── similarity/ # MinHash + LSH structural similarity ├── semantic/ # Multi-signal scoring (tokens, directory, AST) └── cli/ # Interactive TUI installer + artifact export/import

🤝 Contributing

Contributions are welcome! The project uses standard Rust tooling:

# Run tests

cargo test

Lint

cargo clippy -- -D warnings

Format

cargo fmt --all

📄 License

Apache-2.0