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Using the t-SNE plot, cells can be classified based on clustering results or differences in gene and pathway expression.
Multiple single-sample t-SNE plots
By default, each sample in a multi-sample data set is plotted on its own t-SNE.
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One multi-sample t-SNE plot
For some data sets, cell types can be distinguished when all samples can be visualized together on one t-SNE plot. We will use a t-SNE plot of all samples to classify microglia/macrophage and oligodendrocyte cell types.
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