UMAP stratified by cluster ID

UMAP plot with colors indicating cluster membership

cluster.UMAP(
  so,
  group.by = "seurat_clusters",
  x.label = "UMAP 1",
  y.label = "UMAP 2",
  plot.name = "UMAP",
  include.labels = T,
  reduction = "umap",
  pt.size = autoPointSize(ncol(so)),
  show.axis = T,
  ...
)

Arguments

so

Seurat Object

group.by

Character. Metadata feature to group data by. Default is 'seurat_clusters'.

x.label

Character. X axis label.

y.label

Character. Y axis label.

plot.name

Character. Plot title.

include.labels

Logical specifying wheter to plot group IDs on UMAP.

reduction

Character specifying which dimensional reduction to use (e.g., umap, pca). Default is 'umap'.

show.axis

show graph axis (omit theme_void from existing ggplot). Default is T.

...

additional arguments passed to Seurat::DimPlot().

Value

ggplot handle