Benchmarking cell type annotation in spatial transcriptomics: resolving cellular hierarchies, biological fidelity, and dynamic cell states
Yuling Zhu, Yunfei Hu, Manfei Bella Xie, Haoran Qin, Zuzanna J Szul, Derek M Young, Weiman Yuan, Qimeng Wang, Yichen Henry Liu, Wenjun Shen, Shan Meltzer, Xin Zhou
This study benchmarks 20 cell type annotation methods on spatial transcriptomics data to evaluate their performance in resolving cell types, subtypes, and biological organization across diverse datasets.
bioRxiv · Jun 22, 2026 · PreprintBioinformatics