Fig. 3
From: An interpretable framework for clustering single-cell RNA-Seq datasets
Gold standard datasets. DendroSplit is evaluated on four single-cell RNA-Seq datasets where the labels are highly likely to be correct [2, 5, 8, 9, 34]. In addition to visual inspection, cluster quality is evaluated using the adjusted Rand index (ARI) based on the true labels. We observe here that the split step tends to generate more clusters than expected, shrinking the ARI. Additionally, due to how the dendrogram is constructed, a cell may end up in its own cluster and is consequentially labeled as a “Singleton”. The merge step treats both these cases. The cells are visualized using either the first two principal components (PC) or the first two t-distributed stochastic neighbor embedding [63] (t-SNE) components. The reported runtimes include computation of the pairwise distance matrices