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. Author manuscript; available in PMC: 2022 Aug 1.
Published in final edited form as: Nat Protoc. 2021 Jul 7;16(8):4031–4067. doi: 10.1038/s41596-021-00575-5

Figure 11. Selection of a bad highly variable gene set leads to suboptimal performance and obscures biological signal.

Figure 11.

a Anticipated result: AUROC heatmap based on a set of highly variable genes selected by MetaNeighbor. The heatmap has clear replicating clusters (dark red squares) and known secondary biological relationships (e.g., similarity of CGE-derived interneurons Vip, Sncg and Lamp5). b Possible issue: AUROC heatmap based on a set of random genes (same number of genes as the correctly selected highly variable gene set in a). Replicability patterns become weaker: lower performance, gradients within replicating cell types, weaker secondary relationships.