sCCIgen: a high-fidelity spatially resolved transcriptomics data simulator for cell–cell interaction studies

Abstract Spatially resolved transcriptomics (SRT) facilitates the study of cell–cell interactions within native tissue environments. To support method development and benchmarking, we introduce sCCIgen, a real-data-based simulator that generates high-fidelity synthetic SRT data with known interactio...

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Bibliographic Details

Published in:	Genome Biology
Main Authors:	Xiaoyu Song, Joselyn C. Chavez-Fuentes, Weiping Ma, Weijia Fu, Sujung Crystal Shin, Pei Wang, Guo-Cheng Yuan
Format:	Article
Language:	English
Published:	BMC 2025-10-01
Subjects:	Data simulator Spatially resolved transcriptomics Cell–cell interaction
Online Access:	https://doi.org/10.1186/s13059-025-03762-9