BioVix: An Integrated Large Language Model Framework for Data Visualization, Graph Interpretation, and Literature-Aware Scientific Validation

Abstract

The application of Large Language Models (LLMs) for generating data visualizations through natural language interaction represents a promising advance in AI-assisted scientific analysis. However, existing LLM-based tools largely emphasize graph generation, while research workflows require not only visualization but also rigorous interpretation and validation against established scholarly evidence. Despite advances in visualization technologies, no single tool currently integrates literature references with visualization while also generating insights from graphical data. To address this gap, we present BioVix, a web-based LLM-driven framework that integrates interactive data visualization, natural-language querying, and automated retrieval of relevant academic literature. BioVix enables users to upload datasets, generate complex visualizations, interpret graphical patterns, and contextualize findings through literature references within a unified workflow. The system employs a multi-model architecture combining DeepSeek V3.1 for code and logic generation, Qwen2.5-VL-32B-Instruct for multimodal interpretation, and GPT-OSS-20B for conversational reasoning, coordinated through structured prompt engineering. BioVix was evaluated across diverse biological domains, including proteomic expression profiling, epigenomic peak annotation, and clinical diabetes data, demonstrating its flexibility in handling heterogeneous datasets and supporting exploratory, literature-aware analysis. While BioVix substantially streamlines exploratory research workflows, its LLM-generated outputs are intended to support, not replace, expert judgment, and users should independently verify results before scientific reporting. BioVix is openly available via public deployment on Hugging Face (https://huggingface.co/spaces/MuhammadZain10/BioVix), with source code provided through GitHub (https://github.com/MuhammadZain-Butt/BioVix).