Plot a matrix or an *_ipm object

# S3 method for class 'ipmr_matrix'
plot(
  x = NULL,
  y = NULL,
  A,
  col = grDevices::rainbow(100, start = 0.67, end = 0),
  bw = FALSE,
  do_contour = FALSE,
  do_legend = FALSE,
  contour_cex = 1,
  ...
)

# S3 method for class 'simple_di_det_ipm'
plot(
  x = NULL,
  y = NULL,
  ipm = NULL,
  col = rainbow(100, start = 0.67, end = 0),
  bw = FALSE,
  do_contour = FALSE,
  do_legend = FALSE,
  exponent = 1,
  n_row = 1,
  n_col = 1,
  ...
)

# S3 method for class 'simple_di_stoch_param_ipm'
plot(
  x = NULL,
  y = NULL,
  ipm = NULL,
  col = rainbow(100, start = 0.67, end = 0),
  bw = FALSE,
  do_contour = FALSE,
  do_legend = FALSE,
  exponent = 1,
  n_row = 1,
  n_col = 1,
  ...
)

# S3 method for class 'simple_di_stoch_kern_ipm'
plot(
  x = NULL,
  y = NULL,
  ipm = NULL,
  col = rainbow(100, start = 0.67, end = 0),
  bw = FALSE,
  do_contour = FALSE,
  do_legend = FALSE,
  exponent = 1,
  n_row = 1,
  n_col = 1,
  ...
)

# S3 method for class 'general_di_det_ipm'
plot(
  x = NULL,
  y = NULL,
  ipm = NULL,
  mega_mat = NA_character_,
  col = rainbow(100, start = 0.67, end = 0),
  bw = FALSE,
  do_contour = FALSE,
  do_legend = FALSE,
  exponent = 1,
  n_row = 1,
  n_col = 1,
  ...
)

Arguments

x, y: Either the values of the meshpoints or NULL. If NULL, then a sequence is generated so that meshpoints are given sequential bin numbers.
A, ipm: A matrix or a result from make_ipm, or NULL if x is specified as the matrix or IPM object.
col: A vector of colors to use for plotting
bw: A logical indicating whether to use a greyscale palette for plotting
do_contour: A logical indicating whether or not draw contour lines on the plot
do_legend: A logical indicating whether to draw a legend for the plot
contour_cex: A numeric specifying how large to make labels for the contour lines.
...: further arguments passed to legend
exponent: The exponent to raise each kernel to. Setting this to a low number can help visualize kernels that are overwhelmed by a few very large numbers.
n_row, n_col: If plotting multiple (sub-)kernels, how many rows and columns to arrange them in.
mega_mat: A vector with symbols, I's, and/or 0s representing the matrix blocks. They should be specified in ROW MAJOR order! Can also be a character string specifying the call. Parameter set index syntax is supported. When used, format_mega_kernel will produce as many mega-matrices as there are combinations of par_set_indices in the proto_ipm.

Value

A or ipm invisibly

Details

If an IPM kernel is overwhelmed by information in say, a fecundity sub-kernel, use the exponent argument in plot.*_ipm to make it more visually appealing.