plot.bsmfit: Plot a BSM Fit
In tmelliott/bsm: Bayesian Selectivity Modelling of Fisheries Trawl Data

Description Usage Arguments Details Author(s)

Various types of plots of the fitted BSM object

## S3 method for class 'bsmfit'
plot(x, which = "posterior", parameters = NULL,
  estimate = "mean", cred.int = FALSE, cred.alpha = 0.95,
  cred.col = "#99999950", new = TRUE, col = NULL, lty = 1, lwd = 2,
  legend.order = NULL, predict.values = NULL, n.posterior.rows = 3,
  leg.posx = "topleft", leg.posy = NULL, leg.cex = 0.7, leg.bty = "n",
  chain.cols = rainbow(x$fit$BUGSoutput$n.chains + 1, s = 0.8, v = 0.8),
  interactive = FALSE, ...)

`x`	a bsmfit object
`which`	which plot to draw, c("posterior", "curve")
`parameters`	if `which = "posterior"`, `"pairs"`, then these parameters are used
`estimate`	"mean" or "median", the estimate to be used when drawing the curve
`cred.int`	logical, if `TRUE`, then a credible interval is calcualted from the posterior samples of L50 and SR (and delta)
`cred.alpha`	the significance level for the credible interval, default is 0.95
`cred.col`	the colour of the credible interval
`new`	logical, if `TRUE`, then a new plot of the data is drawn, otherwise the curve is plot over any existing one
`col`	colour of lines
`lty`	line type
`lwd`	line width
`legend.order`	order of variables for legend purposes (color, line type, line width)
`predict.values`	extra values to predict
`n.posterior.rows`	the number of rows in the posterior plot
`leg.posx`	x-position of legend, can be "topleft" etc
`leg.posy`	NULL, or y-position of legend
`leg.cex`	size of legend
`leg.bty`	box type of legend
`chain.cols`	colours of lines for traceplots and density plots, NOTE: not used for pairs and curve
`interactive`	logical, if `TRUE`, use clicking on the plot to navigate through plots
`...`	additional parameters to `plot`