1. Introduction
3. User Guide
4. 1. Getting started
5. 1. 1.1. Installation
   2. 1.2. Developing
   3. 1.3. Deploying
7. Reference Guide
8. 2. Phymes-Core
9. 1. 2.1. Algorithm
   2. 2.2. Glossary
   3. 2.3. Example: single source shortest path (SSSP)
   4. 2.4. Example: biological network simulator
   5. 2.5. Example: agentic AI
10. 3. Phymes-ML
11. 1. 3.1. Model assets
    2. 3.2. Example: chat
12. 4. Phymes-Data
13. 1. 4.1. Data operators
    2. 4.2. Dcoument parsers
    3. 4.3. Data visualization
    4. 4.4. Example: Data
14. 5. Phymes-Agents
15. 1. 5.1. Session plan: chat agent
    2. 5.2. Session plan: tool agent
    3. 5.3. Session plan: RAG agent
16. 6. Phymes-Server
17. 1. 6.1. Tutorial
18. 7. Phymes-App
19. 1. 7.1. User Interface (UI)