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. 2021 Sep 29;12:5722. doi: 10.1038/s41467-021-25125-1

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© This is a U.S. Government work and not under copyright protection in the US; foreign copyright protection may apply 2021, corrected publication 2022

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Fig. 6 — a Confusion matrices of the F1 scores for the classification of coarse cell types using label transfer, a support vector machine (SVM), and a fully connected neural network (neural net), (blue = 0; maroon = 1). The actual cell types are in rows and the predicted cell types are in columns in the same order. b Confusion matrices of the F1 scores for the classification of fine neuronal sub-types using label transfer and a fully connected neural network. The actual cell types are in rows and the predicted cell types are in columns, both in the order presented in Table 1. Alternating cell types are labeled. c Model of the two-tiered classification approach in which all cells/nuclei are classified into coarse cell types using label transfer (also including low-quality junk and doublets). Subsequently, all cells/nuclei that were classified as neurons, motoneurons, or doublets by label transfer are further classified into 69 neuronal cell types (also including doublets). d Experimental design for generating an independent set of single nucleus RNA sequencing data. e Distribution plot showing how nuclei from each cluster (rows) were distributed into each of the harmonized cell types (columns), normalized by rows with dark blue = 0.0 fraction; maroon = 1.0 fraction). f Bar plot of the total counts of nuclei that were from known clusters and were correctly classified (81% of total), that were from known clusters and were incorrectly classified (9% of total), that were from unknown clusters but could be identified by their classification (3% of total), or that were from unknown clusters and could not be identified (7% of total). OPC oligodendrocyte precursor cell, progen.1 oligodendrocyte progenitor 1, progen.2 oligodendrocyte progenitor 2, Olig.1 oligodendrocyte 1, Olig.2 oligodendrocyte 2, Periph. peripheral glia, Mening.1 meninges 1, Mening.2 meninges 2, Epend. Ependymal cells, Astro.1 astrocytes 1, Astro.2 astrocytes 2, Endoth endothelial cells, Pericy pericytes, MN = motoneurons; low qual. low quality, MNa motoneurons alpha, PGC preganglionic cell.