plot-MSA-data: Plotting functions for data in MSA model
In multiSA: Multi-Stock Assessment

plot-MSA-data

R Documentation

Plotting functions for data in MSA model

Description

A set of functions to plot data variables and predicted values (catch, age composition, etc.)

Usage

plot_catch(fit, f = 1, by = c("region", "stock"), prop = FALSE, annual = FALSE)

plot_index(fit, i = 1, zoom = FALSE)

plot_CAA(fit, f = 1, r = 1, do_mean = FALSE)

plot_CAL(fit, f = 1, r = 1, do_mean = FALSE)

plot_IAA(fit, i = 1, do_mean = FALSE)

plot_IAL(fit, i = 1, do_mean = FALSE)

plot_SC(fit, ff = 1, aa = 1, r = 1, prop = FALSE)

plot_tagmov(fit, s = 1, yy = 1, aa = 1)

Arguments

`fit`	MSAassess object returned by `fit_MSA()`
`f`	Integer, indexes the fleet
`by`	Character to indicate dimension for multivariate plots
`prop`	Logical, whether to plot proportions (TRUE) or absolute numbers
`annual`	Logical, whether to plot annual values (summed over seasons)
`i`	Integer, indexes the survey
`zoom`	Logical, for `plot_index()`. If `TRUE`, plots a subset of years with observed data points. Otherwise, plots predicted values over all model years.
`r`	Integer, indexes the region
`do_mean`	Logical, whether to plot full compositions or time series of mean length or mean age
`ff`	Integer, indexes the aggregate fleet (for stock composition data)
`aa`	Integer, indexes the aggregate age class (for stock composition and tag data)
`s`	Integer, indexes the stock
`yy`	Integer, indexes the aggregate years (for the tag data)