{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/olaf-an-open-life-science-analysis-framework","title":"OLAF: An Open Life Science Analysis Framework for Conversational Bioinformatics Powered by Large Language Models","arxiv_id":"2504.03976","date":"2025-04-04","proceeding":null,"authors":["Dylan Riffle","Nima Shirooni","Cody He","Manush Murali","Sovit Nayak","Rishikumar Gopalan","Diego Gonzalez Lopez"],"abstract":"OLAF (Open Life Science Analysis Framework) is an open-source platform that enables researchers to perform bioinformatics analyses using natural language. By combining large language models (LLMs) with a modular agent-pipe-router architecture, OLAF generates and executes bioinformatics code on real scientific data, including formats like .h5ad. The system includes an Angular front end and a Python/Firebase backend, allowing users to run analyses such as single-cell RNA-seq workflows, gene annotation, and data visualization through a simple web interface. Unlike general-purpose AI tools, OLAF integrates code execution, data handling, and scientific libraries in a reproducible, user-friendly environment. It is designed to lower the barrier to computational biology for non-programmers and support transparent, AI-powered life science research.","url_abs":"https://arxiv.org/abs/2504.03976v2","url_pdf":"https://arxiv.org/pdf/2504.03976v2.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"olaf-an-open-life-science-analysis-framework","repo_url":"https://github.com/OpenTechBio/Olaf","is_official":1,"mentioned_in_paper":0,"mentioned_in_github":0,"framework":"pytorch","reach":null}],"tasks":[{"task_slug":"data-visualization","task_name":"Data Visualization"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":null,"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}