AutoQC-Bench: a diffusion model and benchmark for automatic quality control in high-throughput microscopy.

Reliable biomedical imaging demands rigorous quality control, yet high-throughput microscopy remains prone to diverse artifacts. We present AutoQC-Bench, a software based on a reconstruction-driven diffusion model flagging abnormal images without prior knowledge, and along with a benchmark of 8000 images capturing common quality issues. The software outperforms existing methods, generalizes across modalities, and supports large-scale bioimaging studies. The software and benchmark are openly shared to advance robust microscopy quality control.