List all projects that have been analyzed by CodeAtlas. Returns project names, paths, and last analysis time.

Get all modules, classes, functions, and variables in the analyzed project. Returns entity type, name, file path, and line number.

Get import/call/containment/implements relationships between entities. Shows how modules, classes, and functions are connected.

Get AI-generated code insights including refactoring suggestions, security issues, and maintainability analysis.

Search for functions, classes, modules, or variables by name. Supports fuzzy matching.

Get all entities (classes, functions, variables) defined in a specific file.

Auto-generate a Mermaid flowchart diagram showing how modules, classes, and functions connect in the system. Returns a Mermaid diagram string that AI can read to understand the full system flow without reading every file.

Create or update the .agents/memory/ folder with auto-generated system documentation. This folder serves as AI's 'long-term memory' — it persists between conversations. After calling this, AI in any future conversation can read these files to understand the full system flow without re-analyzing. Call this after completing any code changes.

Trace the complete flow of a feature through the codebase. Given a keyword (e.g. 'login', 'payment', 'crawl'), finds all related files, classes, and functions, then orders them by dependency chain to show the execution flow. This helps AI understand which files to read when working on a feature.

Generate a Mermaid diagram showing the EXECUTION FLOW of a feature. Unlike generate_system_flow (which shows module imports), this traces the actual call chain: entry point → controller → service → model → database. Given a keyword, it finds all related functions and classes, then builds a flowchart or sequence diagram showing how they call each other at runtime. This is the best tool for understanding HOW a feature works step-by-step.