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BANKSY is a spatial omics clustering algorithm that unifies spatial cell type clustering and domain segmentation into a single scalable framework. It does this by utilizing the spatial microenvironment to augment the transcriptomes of cells, allowing for the discovery of niche-dependent cell subtypes, more accurate clustering, and the identification of zones of coherent gene expression.
The tool BANKSY is freely available for academic purposes. Commercial usage requires a license.
The package is available in R and in Python. R or Python installation on laptop or moderately sized computer is possible.https://github.com/prabhakarlab/Banksyhttps://github.com/prabhakarlab/Banksy_py
BANKSY: A Spatial Omics Algorithm that Unifies Cell Type Clustering and Tissue Domain Segmentation Vipul Singhal, Nigel Chou, Joseph Lee, Jinyue Liu, Wan Kee Chock, Li Lin, Yun-Ching Chang, Erica Teo, Hwee Kuan Lee, Kok Hao Chen, Shyam Prabhakar bioRxiv 2022.04.14.488259; doi:https://doi.org/10.1101/2022.04.14.488259