HyPhy READMEs

This repository contains documentation and supporting information for various HyPhy analyses.

Contents

• Human-Readable Tutorials: Step-by-step guides and documentation intended for researchers and users to understand and run HyPhy analyses.
• LLM-Targeted Information: JSON field descriptions, prompts, and other metadata designed to help Large Language Models (LLMs) interpret and work with HyPhy results and configurations.
• Example Datafiles: Sample datasets used to demonstrate the analyses and provide a baseline for users.

Structure

The repository is organized by analysis type (e.g., busted-ph/). Each directory may contain:

• README.md: The primary tutorial or documentation for the analysis.
• JSON schemas or field descriptions.
• Prompt templates for LLM interactions.
• data/: A directory containing example datafiles.