plot function

pomp plotting facilities

Diagnostic plots.

## 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.