SSplotCohortCatch: Plot cumulative catch by cohort.

In r4ss: R Code for Stock Synthesis

Plot cumulative catch by cohort.

Description

Cumulative catch contributions for each cohort are plotted based on estimated catch-at-age matrix and weight-at-age values by fleet. Curves are shown in units of both numbers and biomass.

Usage

SSplotCohortCatch(
  replist,
  subplots = 1:2,
  add = FALSE,
  plot = TRUE,
  print = FALSE,
  cohortcols = "default",
  cohortfrac = 1,
  cohortvec = NULL,
  cohortlabfrac = 0.1,
  cohortlabvec = NULL,
  lwd = 3,
  plotdir = "default",
  xlab = "Year",
  labels = c("Age", "Cumulative catch by cohort (in numbers x1000)",
    "Cumulative catch by cohort (x1000 mt)"),
  pwidth = 6.5,
  pheight = 5,
  punits = "in",
  res = 300,
  ptsize = 10,
  cex.main = 1,
  verbose = TRUE
)

Arguments

replist	A list object created by SS_output().
subplots	Vector controlling which subplots to create
add	Add to existing plot? (not yet implemented)
plot	Plot to active plot device?
print	Print to PNG files?
cohortcols	Vector of colors to show for each cohort. Default is range of colors shade indicating time period.
cohortfrac	What fraction of the cohorts to include in plot. If value < 1 is used, then cohorts are filtered to only include those with the highest maximum cumulative catch. Value will be overridden by cohortvec.
cohortvec	Optional vector of birth years for cohorts to include in plot. Value overrides cohortfrac.
cohortlabfrac	What fraction of the cohorts to label in plot. By default, top 10% of cohorts are labeled. Value will be overridden by cohortlabvec.
cohortlabvec	Optional vector of birth years for cohorts to label in plot. Value overrides cohortlabfrac.
lwd	Line width
plotdir	Directory where PNG or PDF files will be written. By default it will be the directory where the model was run.
xlab	x-label for all plots
labels	Vector of labels for plots (titles and axis labels)
pwidth	Width of plot
pheight	Height of plot
punits	Units for PNG file
res	Resolution of plots printed to files. The default is res = 300.
ptsize	point size for PNG file
cex.main	Character expansion for plot titles (no titles in this function yet)
verbose	Report progress to R console?

Author(s)

Ian Taylor

See Also

SS_plots(), SS_output()

r4ss documentation built on May 28, 2022, 1:11 a.m.