compareFits.BiomassData: Compare fits to biomass time series by fleet among several...

In wStockhausen/rCompTCMs: Package to compare TCSAM02, rsimTCSAM, and TCSAM2013 model runs

Compare fits to biomass time series by fleet among several model runs

Description

Function to compare fits to biomass time series by fleet among several model runs.

Usage

compareFits.BiomassData(
  objs = NULL,
  fleets = "all",
  fleet.type = c("survey", "fishery"),
  catch.type = c("index", "retained", "discard", "total"),
  ci = 0.8,
  fishery.pdfType = c("norm2", "normal", "lognormal"),
  numRecent = 15,
  plot1stObs = TRUE,
  scales = "free_y",
  position = position_dodge(0.3),
  pdf = NULL,
  showPlot = FALSE,
  verbose = FALSE
)

Arguments

objs	object that can be converted into a list of tcsam2013.resLst and/or tcsam02.resLst objects, OR a melted dataframe
fleets	names of fleets to include (or "all")
fleet.type	fleet type ('fishery' or 'survey')
catch.type	catch type ('index','retained', or 'total')
ci	confidence interval for plots
fishery.pdfType	choice for fishery CIs ("norm2","normal","lognormal")
numRecent	number of recent years to include in "recent years" plots
plot1stObs	flag (T/F) to plot observations only from the first model
scales	ggplot2 scales option for facet_grid
position	indicates ggplot2 position_ to use ('dodge','jitter','identity',)
pdf	name for output pdf file
showPlot	flag (T/F) to show plot
verbose	flag (T/F) to print diagnostic information

Details

If objs is a list, then extractMDFR.Fits.BiomassData() is used to extract a melted dataframe in canonical format with the biomass observations and predictions to be plotted. objs can also be a melted dataframe from a previous call to extractMDFR.Fits.BiomassData(). Also uses wtsUtilities::printGGList().

Value

Non-nested list of ggplot2 objects, with captions as names, or NULL.

wStockhausen/rCompTCMs documentation built on Sept. 12, 2023, 3:13 p.m.