hypogenic-hypothesis-generation

npx skills add BioTender-max/awesome-bio-agent-skills --skill hypogenic-hypothesis-generation --agent claude-code

Same command for any agent — swap --agent for codex, cursor, copilot.

# HypoGeniC Hypothesis Generation ## Overview HypoGeniC automates scientific hypothesis generation and testing using LLMs on tabular datasets. Given labeled data (e.g., deception detection, AI-content identification), it generates testable hypotheses, iteratively refines them against validation performance, and runs inference to classify new samples. It supports three approaches: purely data-driven (HypoGeniC), literature-integrated (HypoRefine), and mechanistic union of both. ## When to Use - Generating testable hypotheses from labeled observational datasets without prior theory - Systematically testing multiple competing hypotheses on empirical data - Combining insights from research papers with data-driven pattern discovery - Accelerating hypothesis ideation in domains like deception detection, content analysis, mental health indicators - Benchmarking LLM-based hypothesis generation methods against few-shot baselines - For manual hypothesis formulation frameworks, use **hypothesis-generation** knowhow - For general-purpose ML classification without hypothesis interpretability, use **scikit-learn-machine-learning** ## Prerequisites - **Python packages**: `hypogenic` - **Optional*

pip install hypogenic
git clone https://github.com/ChicagoHAI/HypoGeniC-datasets.git ./data
git clone https://github.com/ChicagoHAI/Hypothesis-agent-datasets.git ./data_lit
bash ./modules/setup_grobid.sh
mkdir -p literature/my_task/raw/
cp papers/*.pdf literature/my_task/raw/
bash ./modules/run_grobid.sh
cd examples && python pdf_preprocess.py --task_name my_task