Make a nearest neighbor map for a single field — nearest_neighbor

The phenotype definitions may be NA, in which case the base field will be shown with any available phenotype.

nearest_neighbor_map(
  csd,
  field_name,
  view_number,
  export_path,
  phenos,
  color1,
  color2,
  show_as = c("from_to", "to_from", "mutual", "none"),
  dot_size = 3,
  add_logo = TRUE
)

Arguments

csd: Cell seg data with distance columns
field_name: Sample Name or Annotation ID to map
view_number: Image index within the composite data
export_path: Path to a directory containing composite and component image files from inForm
phenos: Named list of phenotype definitions. Must have length 2.
color1, color2: Colors to draw the phenotype dots
show_as: Which nearest neighbors should be shown?
dot_size: Size of the dots used to show phenotypes
add_logo: Show the Akoya logo in the image?

Value

Returns a list containing two items:

plot: The plot, a ggplot object.
data: A tibble containing the data used to create the line segments in the plot, or NULL if show_as is "none".