SSplotTimeseries: Plot timeseries data
In r4ss: R code for Stock Synthesis

Description Usage Arguments Author(s) See Also

Plot timeseries data contained in TIME_SERIES output from Stock Synthesis report file. Some values have optional uncertainty intervals.

SSplotTimeseries(replist, subplot, add = FALSE, areas = "all",
areacols = "default", areanames = "default", forecastplot = TRUE,
uncertainty = TRUE, bioscale = "default", minyr=NULL, maxyr=NULL,
plot = TRUE, print = FALSE, plotdir = "default", verbose = TRUE,
btarg="default", minbthresh="default", xlab = "Year",
           labels=c("Total biomass (mt)", 
             "Total biomass (mt) at beginning of season", 
             "Summary biomass (mt)",      
             "Summary biomass (mt) at beginning of season", 
             "Spawning biomass (mt)",     
             "Spawning depletion",        
             "Spawning output (eggs)",    
             "Age-0 recruits (1,000s)",  
             "Fraction of total Age-0 recruits",
             "Management target", "Minimum stock size threshold"),  
pwidth = 7, pheight = 7, punits = "in", res = 300, ptsize = 12,
cex.main = 1)

`replist`	list created by `SS_output`
`subplot`	number controlling which subplot to create
`add`	add to existing plot? (not yet implemented)
`areas`	optional subset of areas to plot for spatial models
`areacols`	vector of colors by area. Default uses rich.colors by Arni Magnusson
`areanames`	names for areas. Default is to use Area1, Area2,...
`forecastplot`	add points from forecast years
`uncertainty`	add intervals around quantities for which uncertainty is available
`bioscale`	scaling for spawning biomass by default it will be set to 0.5 for single-sex models, and 1.0 for all others
`minyr`	optional input for minimum year to show in plots
`maxyr`	optional input for maximum year to show in plots
`plot`	plot to active plot device?
`print`	print to PNG files?
`plotdir`	directory where PNG or PDF files will be written. by default it will be the directory where the model was run.
`verbose`	report progress to R GUI?
`btarg`	Target depletion to be used in plots showing depletion. May be omitted by setting to 0. "default" chooses value based on modeloutput.
`minbthresh`	Threshold depletion to be used in plots showing depletion. May be omitted by setting to 0. "default" assumes 0.25 unless btarg in model output is 0.25 in which case minbthresh = 0.125 (U.S. west coast flatfish).
`xlab`	x axis label for all plots
`labels`	vector of labels for plots (titles and axis labels)
`pwidth`	width of plot written to PNG file
`pheight`	height of plot written to PNG file
`punits`	units for PNG file
`res`	resolution for PNG file
`ptsize`	ptsize for PNG file
`cex.main`	character expansion for plot titles