Plot Spatial Point Process — plotPP • funkycells

This function is used to plot a spatial point process. This does not split data and instead puts all given data on a single plot.

Usage

plotPP(
  data,
  colorGuide = NULL,
  ptSize = 1,
  xlim = c(min(data[, 1]), max(data[, 1])),
  ylim = c(min(data[, 2]), max(data[, 2])),
  dropAxes = FALSE,
  layerBasedOnFrequency = TRUE,
  colors = NULL
)

Arguments

data: Data.frame with x, y, and agent type (in that order)
colorGuide: (Optional) String for 'guides(color=)' in ggplot2. Usually NULL or 'none' is sufficient, but ggplot2::guide_legend() can also be used for more custom results. Default is NULL.
ptSize: (Optional) Numeric indicating point size. Default is 1.
xlim: (Optional) Two value numeric vector indicating the size of the region in the x-direction. Default is c(min(x), max(x)).
ylim: (Optional) Two value numeric vector indicating the size of the region in the y-direction. Default is c(min(y), max(y)).
dropAxes: (Optional) Boolean indicating if the x and y axis title and labels should be dropped. Default is FALSE.
layerBasedOnFrequency: (Optional) Boolean indicating if the data should be layer based on the number of agents of the type. Default is TRUE.
colors: (Optional) Vector of colors for the points. Default is NULL, or ggplot2 selected colors.

Value

ggplot2 plot of the spatial point process.

Examples

ppplot <- plotPP(
  TNBC_pheno[
    TNBC_pheno$Person == 1,
    c("cellx", "celly", "Phenotype")
  ],
  colorGuide = "none"
)