Fig. 2
From: Single-cell spatial explorer: easy exploration of spatial and multimodal transcriptomics
Spleen sample prepared with \(10\times\) Genomics Visium and analysed using scSpatial Explorer. Image of hematoxylin eosine staining of a human spleen sample (A, B): UMAP plot of transcriptomic clusters from the corresponding dataset and spatial overlay of these clusters (same color code) on the tissue image. The Signature View mode (C, D) overlays the tissue image with the spot’s enrichment scores for selected gene signatures (’Inferno’ gradient heatmap), here showing follicular areas and peri-follicular associated to functions (C) and cell types (D). The transcriptomic clusters were finally summarized (E) into 4 main cell classes: B cells (orange), macrophages (blue), CD4 Tfh (black) and T cells (green)