plot_cell_clusters {monocle} | R Documentation |
Plots clusters of cells .
plot_cell_clusters( cds, x = 1, y = 2, color_by = "Cluster", markers = NULL, show_cell_names = FALSE, cell_size = 1.5, cell_name_size = 2, ... )
cds |
CellDataSet for the experiment |
x |
the column of reducedDimS(cds) to plot on the horizontal axis |
y |
the column of reducedDimS(cds) to plot on the vertical axis |
color_by |
the cell attribute (e.g. the column of pData(cds)) to map to each cell's color |
markers |
a gene name or gene id to use for setting the size of each cell in the plot |
show_cell_names |
draw the name of each cell in the plot |
cell_size |
The size of the point for each cell |
cell_name_size |
the size of cell name labels |
... |
additional arguments passed into the scale_color_viridis function |
a ggplot2 plot object
## Not run: library(HSMMSingleCell) HSMM <- load_HSMM() HSMM <- reduceD plot_cell_clusters(HSMM) plot_cell_clusters(HSMM, color_by="Pseudotime") plot_cell_clusters(HSMM, markers="MYH3") ## End(Not run)