geneCover resolves hippocampal subfields in the mouse brain. To obtain the geneCover marker panel, we apply Iterative-GeneCover in Algorithm 1 with parameters: {k_t}_1:T = {80, 60, 60}, m = 3. (A) Leiden clusters learned from 200 geneCover markers, with a highlight of clusters in the CA1–CA3 subiculum and dentate gyrus regions. (B) Same as panel A but for 200 geneBasis markers. (C) Same as panel A but for 200 principal components from the whole transcriptome. (D) Legend for clusters in panels A, B, and C. (E) Differentially expressed geneCover markers for geneCover clusters 10, 11, and 12. (F) Four graph-based clusters provided by 10x Genomics with the lowest cell abundance. (G) Comparison of geneCover and geneBasis in resolving rare spatial organization in the mouse brain.