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Fig. 5 | Genome Biology

Fig. 5

From: BASS: multi-scale and multi-sample analysis enables accurate cell type clustering and spatial domain detection in spatial transcriptomic studies

Fig. 5

Clustering cell types in the STARmap dataset. A Barplots of ARI display the accuracy of different methods for cell type clustering. Compared methods include BASS, Seurat, SC3, and FICT. Results for BASS, Seurat, and SC3 are shown for both the single tissue section analysis on the tissue section BZ5 and multi-sample analysis (BASSMult, SC3Mult, and SeuratMult) that fitted all the three tissue sections (BZ5, BZ9, and BZ14) and evaluated ARI on the section BZ5 (e.g., BASSMult (BZ5)) as well as on all three tissue sections (e.g., BASSMult). B–E UMAP visualization of cell type clustering results on BZ5 by B BASS, C Seurat, D SC3, and E FICT for analyzing the single section BZ5. F UMAP visualization of cell type clustering results on three sections (BZ5, BZ9, and BZ14) by the multi-sample version of BASS. G Cell type compositions estimated by the multi-sample version of BASS. Excitatory neurons: eL2/3, eL5a, eL5b, eL5c, eL5d, eL6a, and eL6b; Inhibitory neurons: Reln, VIP, SST, and Lhx6; Oligo: oligodendrocytes; Smc: smooth muscle cells; Astro: astrocytes; and Micro: microglia

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