BIABench: Evaluating AI agents on real-world bioimage analysis tasks

arXiv:2609.34274 · cs.AI, cs.CL · Submitted 2026-09-28 · Read on arXiv

cs.AI, cs.CL

Submitted: 2026-09-28

Updated: 2026-09-28

Code: https://github.com/BIABench/BIABench

Project page: https://biabench.github.io

Terminology

• AI Agents — 48× in this paper · explained in 2 episodes
• Benchmark — 47× in this paper · explained in 2 episodes
• Feature Extraction — 10× in this paper · explained in 2 episodes
• Accuracy — 9× in this paper · explained in 1 episode
• Benchmarking — 8× in this paper · explained in 4 episodes
• Abstention — 5× in this paper · explained in 1 episode
• Alignment — 4× in this paper · explained in 1 episode
• Provenance — 4× in this paper · explained in 4 episodes
• Segmentation Masks — 4× in this paper · explained in 2 episodes
• Core — 2× in this paper · explained in 2 episodes
• Optical Flow — 2× in this paper · explained in 2 episodes
• Trace — 2× in this paper · explained in 2 episodes
• Adam — 1× in this paper · explained in 2 episodes
• Agent Harness — 1× in this paper · explained in 2 episodes
• Agent Interactions — 1× in this paper · explained in 1 episode
• Agent Skills — 1× in this paper · explained in 1 episode
• Agentic System — 1× in this paper · explained in 2 episodes
• Aggregation — 1× in this paper · explained in 1 episode
• Artificial Intelligence (AI) — 1× in this paper · explained in 2 episodes
• Attention Mechanism — 1× in this paper · explained in 3 episodes
• Calibration — 1× in this paper · explained in 7 episodes
• Computational Biology — 1× in this paper · explained in 2 episodes
• Consistency — 1× in this paper · explained in 3 episodes
• Diffusion Model — 1× in this paper · explained in 8 episodes
• Generalization — 1× in this paper · explained in 13 episodes
• Human-in-the-Loop — 1× in this paper · explained in 3 episodes
• Instance Segmentation — 1× in this paper · explained in 3 episodes
• Interpretability — 1× in this paper · explained in 15 episodes
• LLM judge — 1× in this paper · explained in 2 episodes
• LLM-as-a-Judge — 1× in this paper · explained in 3 episodes
• Langevin Dynamics — 1× in this paper · explained in 2 episodes
• Large Language Models (LLMs) — 1× in this paper · explained in 6 episodes
• Mean Absolute Error — 1× in this paper
• Multi-Agent System — 1× in this paper · explained in 6 episodes
• Multimodal Reasoning — 1× in this paper · explained in 5 episodes
• Pairwise Comparisons — 1× in this paper · explained in 2 episodes
• Robustness — 1× in this paper · explained in 5 episodes

Sources

• Agentic-J: An AI Agent for Biological Microscopy Image Analysis
• LAB-Bench: Measuring Capabilities of Language Models for Biology Research
• BixBench: a Comprehensive Benchmark for LLM-based Agents in Computational Biology
• BixBench3: Benchmarking AI agents on research-study-scale computational biology tasks
• BioXArena: Benchmarking LLM Agents on Multi-Modal Biomedical Machine Learning Tasks
• $\tau^2$-Bench: Evaluating Conversational Agents in a Dual-Control Environment
• BrowseComp: A Simple Yet Challenging Benchmark for Browsing Agents
• Claw-SWE-Bench: A Benchmark for Evaluating OpenClaw-style Agent Harnesses on Coding Tasks
• Harness-Bench: Measuring Harness Effects across Models in Realistic Agent Workflows
• STELLA: Self-Evolving LLM Agent for Biomedical Research

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