plotPP {funkycells}

Plot Spatial Point Process

Description

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"
)