SOAPy: a Python package to dissect spatial architecture, dynamics, and communication

作者：Heqi Wang, Jiarong Li, Siyu Jing, Ping Lin, Yiling Qiu, Xi Yan, Jiao Yuan, ZhiXuan Tang, Yu Li, Haibing Zhang, Yujie Chen, Zhen Wang, Hong Li · 发表于：Genome biology · 年份：2025 · DOI：10.1186/s13059-025-03550-5 · 被引用次数：16 · 研究领域：Single-cell and spatial transcriptomics、Precipitation Measurement and Analysis、demographic modeling and climate adaptation

Advances in spatial omics enable deeper insights into tissue microenvironments while posing computational challenges. Therefore, we developed SOAPy, a comprehensive tool for analyzing spatial omics data, which offers methods for spatial domain identification, spatial expression tendency, spatiotemporal expression pattern, cellular co-localization, multi-cellular niches, cell-cell communication, and so on. SOAPy can be applied to diverse spatial omics technologies and multiple areas in physiological and pathological contexts, such as tumor biology and developmental biology. Its versatility and robust performance make it a universal platform for spatial omics analysis, providing diverse insights into the dynamics and architecture of tissue microenvironments.