Figure 1. The simulation data projected onto its first two principal components.

The cell types are represented by the different shapes (circle, triangle) and the cell-cycle time point of each cell is represented by the different colors (red, blue, green). (a) Original Data. Here the data is clustered into six groups corresponding to the combinations of cell type and cell-cycle status. (b) scLVM corrected data (one latent factor removed). The data clusters into three groups corresponding to cell-cycle status. (c) scLVM corrected data (three latent factors removed). No distinct clusters are observed. (d) ccRemover corrected data. The data splits into two groups corresponding to the cell types.