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. Author manuscript; available in PMC: 2019 Jan 18.
Published in final edited form as: Curr Protoc Cytom. 2018 Jan 18;83:10.21.1–10.21.28. doi: 10.1002/cpcy.34

Figure 15. Plot t-SNE axes and view FlowSOM clusters as the overlaid dimension.

Figure 15

FlowSOM clusters can be displayed on top of the t-SNE axes on which FlowSOM clustered. This method can be used to visually check whether or not the clustering captures expected populations of cells. The number of clusters and other FlowSOM parameters can then be adjusted to optimize the clustering.