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bioRxiv · 10.1101/2024.08.23.609349

SpatialLeiden - Spatially-aware Leiden clustering

Müller-Bötticher, N.·Sahay, S.·Eils, R.·Ishaque, N.
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Abstract

Clustering can identify the natural structure that is inherent to measured data. For single-cell omics, clustering finds cells with similar molecular phenotype after which cell types are annotated. Leiden clustering is the algorithm of choice in the single-cell community. However, in the field of spatial omics, Leiden has been considered a non-spatial clustering method. Here, we show that by integrating spatial embeddings Leiden clustering is rendered into a computationally highly performant, spatially aware clustering method that compares well with state-of-the art clustering methods.

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Müller-Bötticher, N., Sahay, S., Eils, R., Ishaque, N.. 2024-08-23. SpatialLeiden - Spatially-aware Leiden clustering. https://doi.org/10.1101/2024.08.23.609349

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