Render a mask as a coloured image

Assigns colours to cell regions based on cell ID, area, circularity, or cluster membership.

Usage

sg_plot_mask(
  mask,
  color_by = c("id", "area", "circularity", "cluster"),
  features = NULL,
  palette = "viridis"
)

Arguments

mask

An sg_mask object.

color_by

Character, one of "id", "area", "circularity", or "cluster".

features

A data frame of cell features (required when color_by is "area", "circularity", or "cluster"). Must contain a cell_id column.

palette

Character, name of a viridis palette (default "viridis").

Value

A ggplot2 object.

Examples

labels <- matrix(c(0L, 1L, 1L, 2L, 2L, 0L, 3L, 3L, 0L), 3, 3)
mask <- new_sg_mask(labels)
p <- sg_plot_mask(mask)
p