scSpatialSIM (version 0.1.3.4)

PlotSimulation: Plot Simulation

Description

Plot different aspects of a SpatSimObj

Usage

PlotSimulation(
  sim_object,
  nrow = 1,
  ncol = 1,
  which = 1,
  what = "tissue heatmap"
)

Value

A plot or a grid of plots, depending on the input arguments

Arguments

sim_object

A SpatSimObj

nrow

Number of rows of plots (only applicable when more than one plot is made)

ncol

Number of columns of plots (only applicable when more than one plot is made)

which

Index of the elements of the SpatSimObj to be plotted

what

What to plot ("tissue heatmap", "hole heatmap", or "whole core")

Details

The PlotSimulation function is used to plot different aspects of a SpatSimObj The function takes a sim_object as its first argument, which should be an object of class "Spatial Simulation Object". The function can then be used to plot different aspects of the simulation, such as heatmaps of the tissue or holes, or a plot of the whole core with assigned cells colored by type.

When what is set to "tissue heatmap" or "hole heatmap", the function will plot heatmaps of the specified tissue or hole. When what is set to "whole core", the function will plot the entire core with assigned cells colored by type. Only a single element of the sim_object can be plotted when what is set to "whole core". what equal to "tissue points", "hole points", or "tissue hole points" will result in a point plot of the respective assignments on points.

When more than one plot is made, nrow and ncol can be used to specify the number of rows and columns of the plot grid, respectively.

Examples

# create a SpatSimObj
sim_object <- CreateSimulationObject()
sim_object = GenerateSpatialPattern(sim_object)
sim_object = GenerateTissue(sim_object, density_heatmap = TRUE, step_size = 1, cores = 1)
# plot a heatmap of tissue 1
PlotSimulation(sim_object, which = 1, what = "tissue heatmap")