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Fig. 8 | BMC Bioinformatics

Fig. 8

From: Analysis of single-cell RNA sequencing data based on autoencoders

Fig. 8

Results obtained on the MCA datasets. a Boxplot showing the ARI values achieved by CCA, ComBat, PCA, MMDVAE followed by Harmony with dimension (256, 64), PCA followed by BBKNN, and PCA followed by Harmony. b Boxplot showing the ARI values achieved by the best AE for each of the tested dimension (HL) of the hidden layer (H neurons) and latent space (L neurons). c UMAP visualisation of the cell-type manually annotated in the original paper. d UMAP visualisation of clusters identified by the Leiden algorithm using the resolution corresponding by the best ARI achieved by MMDVAE followed by Harmony. p-value \(\le 0.0001\) (****); \(0.0001< p\)-value \(\le 0.001\) (***); \(0.001<p\)-value \(\le 0.01\) (**); \(0.01<p\)-value \(\le 0.05\) (*); p-value \(>0.05\) (ns)

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