plot: pomp plotting facilities

In pomp: Statistical Inference for Partially Observed Markov Processes

pomp plotting facilities

Description

Diagnostic plots.

Usage

## S4 method for signature 'pomp_plottable'
plot(
  x,
  variables,
  panel = lines,
  nc = NULL,
  yax.flip = FALSE,
  mar = c(0, 5.1, 0, if (yax.flip) 5.1 else 2.1),
  oma = c(6, 0, 5, 0),
  axes = TRUE,
  ...
)

## S4 method for signature 'Pmcmc'
plot(x, ..., pars)

## S4 method for signature 'Abc'
plot(x, ..., pars, scatter = FALSE)

## S4 method for signature 'Mif2'
plot(x, ..., pars, transform = FALSE)

## S4 method for signature 'probed_pomp'
plot(x, y, ...)

## S4 method for signature 'spectd_pomp'
plot(
  x,
  ...,
  max.plots.per.page = 4,
  plot.data = TRUE,
  quantiles = c(0.025, 0.25, 0.5, 0.75, 0.975),
  quantile.styles = list(lwd = 1, lty = 1, col = "gray70"),
  data.styles = list(lwd = 2, lty = 2, col = "black")
)

## S4 method for signature 'bsmcd_pomp'
plot(x, pars, thin, ...)

## S4 method for signature 'probe_match_objfun'
plot(x, y, ...)

## S4 method for signature 'spect_match_objfun'
plot(x, y, ...)

Arguments

x	the object to plot
variables	optional character; names of variables to be displayed
panel	function of the form panel(x, col, bg, pch, type, ...) which gives the action to be carried out in each panel of the display.
nc	the number of columns to use. Defaults to 1 for up to 4 series, otherwise to 2.
yax.flip	logical; if TRUE, the y-axis (ticks and numbering) should flip from side 2 (left) to 4 (right) from series to series.
mar, oma	the par mar and oma settings. Modify with care!
axes	logical; indicates if x- and y- axes should be drawn
...	ignored or passed to low-level plotting functions
pars	names of parameters.
scatter	logical; if FALSE, traces of the parameters named in pars will be plotted against ABC iteration number. If TRUE, the traces will be displayed or as a scatterplot.
transform	logical; should the parameter be transformed onto the estimation scale?
y	ignored
max.plots.per.page	positive integer; maximum number of plots on a page
plot.data	logical; should the data spectrum be included?
quantiles	numeric; quantiles to display
quantile.styles	list; plot styles to use for quantiles
data.styles	list; plot styles to use for data
thin	integer; when the number of samples is very large, it can be helpful to plot a random subsample: thin specifies the size of this subsample.

pomp documentation built on Sept. 13, 2024, 1:08 a.m.