Fig. 3: Benchmarking mapping performance in real spatial data. | Nature Communications

Fig. 3: Benchmarking mapping performance in real spatial data.

From: Multi-scale and multi-context interpretable mapping of cell states across heterogeneous spatial samples

Fig. 3

a ARI of mapped cell type labels between a reference seqFISH mouse embryo dataset and a query seqFISH mouse embryo dataset. We compared Vesalius using 14 different cost matrices to SLAT, CytoSpace, CytoSpace with no cell type labels (noLab), Tangram, Scanorama, and PASTE. In seqFISH data, the addition of cell type labels or composition of cellular neighborhoods improves Vesalius’s ability to accurately map cells across samples, even outperforming SLAT and Scanorama. b JI of cell interactions of the neighborhood (k = 10). c Example mapping event in seqFISH mouse embryo. We show mapping events for 3 Vesalius cost matrices (fncty, fnct, fnt). d ARI of mapped cell type labels between a reference Slide-seq V2 mouse hippocampus dataset and a query Slide-seq V2 mouse hippocampus dataset. e JI of cell interactions of the neighborhood (k = 10). f Example mapping event in Slide-seq V2 mouse hippocampus. We show mapping events for 3 Vesalius cost matrices (fncty, fnct, fnt). Source data are provided as a Source Data file.

Back to article page