jbplot_retro: jbplot_retro() to plot retrospective pattern

In jabbamodel/JABBA: Just Another Bayesian Biomass Assessment

jbplot_retro() to plot retrospective pattern

Description

Plots retrospective pattern of B, F, BBmsy, FFmsy, BB0 and SP #'

Usage

jbplot_retro(
  hc,
  type = c("B", "F", "BBmsy", "FFmsy", "procB", "SP"),
  forecast = FALSE,
  ylabs = NULL,
  add = F,
  output.dir = getwd(),
  as.png = FALSE,
  single.plots = add,
  width = NULL,
  height = NULL,
  xlim = NULL,
  cols = NULL,
  legend.loc = "topright",
  verbose = TRUE
)

Arguments

hc	output list from hindast_jabba()
type	single plot option c("B","F","BBmsy","FFmsy","BB0","SP")
forecast	includes retrospective forecasting if TRUE
ylabs	yaxis labels for quants
add	add to multi plot if TRUE
output.dir	directory to save plots
as.png	save as png file of TRUE
single.plots	if TRUE plot invidual fits else make multiplot
width	plot width
height	plot hight
xlim	allows to "zoom-in" requires speficiation Xlim=c(first.yr,last.yr)
cols	option to add colour palette
legend.loc	location of legend
verbose	if FALSE be silent

Value

Mohn's rho statistic for several quantaties

Examples

data(iccat)
bet= iccat$bet
jb = build_jabba(catch=bet$catch,cpue=bet$cpue,se=bet$se,assessment="BET",scenario = "Ref",model.type = "Pella",igamma = c(0.001,0.001),verbose=FALSE)
fit = fit_jabba(jb,quickmcmc=TRUE,verbose=FALSE)
hc = hindcast_jabba(jbinput=jb,fit=fit,peels=1:3)
jbplot_retro(hc)
jbplot_retro(hc,forecast=TRUE) # with retro forecasting

jabbamodel/JABBA documentation built on Nov. 2, 2024, 12:50 p.m.