Description Usage Arguments Author(s) See Also
View source: R/SSplotTimeseries.R
Plot timeseries data contained in TIME_SERIES output from Stock Synthesis report file. Some values have optional uncertainty intervals.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 | 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 |
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 |
Ian Taylor, Ian Stewart
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