User Guide

A comprehensive pipeline for extracting, analyzing, and benchmarking structured information from scientific literature using Large Language Models and Vision AI.

This guide assumes you have already installed MetaBeeAI. If you haven’t done so, please refer to the Installation Guide.

For the Quick Start Guide, please refer to the Quick Start Guide.

User Guide

• Setup Guide
  • Required API Accounts
  • Setting Up API Keys
• Configuration Guide
  • Configuration Hierarchy
  • Quick Start
  • Configuration File Format
  • Common Parameters
  • Using Environment Variables
  • Using Config Files
  • Examples
  • Command-Specific Settings
  • Troubleshooting
  • See Also
• Pipeline Overview
  • Stages
• Complete Workflow
  • Step 1 — Process PDFs to JSON
  • Step 2 — Extract Information with LLM
  • Step 3 — Human Review (Optional)
  • Step 4 — Benchmarking and Evaluation
  • Step 5 — Data Analysis
• Benchmarking
• Data Analysis
• Troubleshooting Guide

For development workflows, contribution guidance, and documentation maintenance, see the Developer Guide.