Cluster Highlight Plot — Cluster_Highlight

Create Plot with cluster of interest highlighted

Cluster_Highlight_Plot(
  seurat_object,
  cluster_name,
  highlight_color = NULL,
  background_color = "lightgray",
  pt.size = NULL,
  aspect_ratio = NULL,
  figure_plot = FALSE,
  raster = NULL,
  raster.dpi = c(512, 512),
  label = FALSE,
  split.by = NULL,
  split_seurat = FALSE,
  ggplot_default_colors = FALSE,
  ...
)

Arguments

seurat_object: Seurat object name.
cluster_name: Name(s) (or number(s)) identity of cluster to be highlighted.
highlight_color: Color(s) to highlight cells. The default is NULL and plot will use scCustomize_Palette().
background_color: non-highlighted cell colors.
pt.size: point size for both highlighted cluster and background.
aspect_ratio: Control the aspect ratio (y:x axes ratio length). Must be numeric value; Default is NULL.
figure_plot: logical. Whether to remove the axes and plot with legend on left of plot denoting axes labels. (Default is FALSE). Requires split_seurat = TRUE.
raster: Convert points to raster format. Default is NULL which will rasterize by default if greater than 200,000 cells.
raster.dpi: Pixel resolution for rasterized plots, passed to geom_scattermore(). Default is c(512, 512).
label: Whether to label the highlighted cluster(s). Default is FALSE.
split.by: Feature to split plots by (i.e. "orig.ident").
split_seurat: logical. Whether or not to display split plots like Seurat (shared y axis) or as individual plots in layout. Default is FALSE.
ggplot_default_colors: logical. If colors_use = NULL, Whether or not to return plot using default ggplot2 "hue" palette instead of default "polychrome" or "varibow" palettes.
...: Extra parameters passed to DimPlot.

Value

A ggplot object

Examples

Cluster_Highlight_Plot(seurat_object = pbmc_small, cluster_name = "1", highlight_color = "gold",
background_color = "lightgray",  pt.size = 2)