Fig. 4: Adjusted Rand indices (ARIs)31 of Leiden community detection42 in the PBMC dataset.
From: q-Diffusion leverages the full dimensionality of gene coexpression in single-cell transcriptomics
Bars represent the alignment of clusters with IFN-γ stimulation and control conditions for each of the cell types. Error bars are computed from bootstrapped estimator standard deviations. Our q-diffused kernel-induced graph structure is compared to the neighborhood graph methods in Seurat7, Monocle8, Scanpy9, and optimal transport [e.g. ref. 50]. Clusters computed by SC385 are included as well.
