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Fig. 2 | BMC Bioinformatics

Fig. 2

From: CytoTree: an R/Bioconductor package for analysis and visualization of flow and mass cytometry data

Fig. 2

Summary of the analysis workflow of CytoTree. Summary of the CytoTree workflow for constructing the tree-shaped trajectory and performing pseudotime estimation and intermediate analysis. One single FCS file or multiple FCS files can be read and used to build the CYT object. The procedures of clustering, dimensionality reduction and the construction of tree-shaped trajectories can be run step by step. The optimization of the trajectory is an optional step consisting of the different combinations of clustering methods and dimensionality reduction methods. After that, we can define root cells and estimate the pseudotime, and then perform intermediate state analysis

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