A function to create a list object for the output from Stock Synthesis
Timeline of presence/absence of data by type, year, and fleet.
Make a map of movement for a 5-area Indian Ocean model
A function for converting Stock Synthesis output to the format
used by FishGraph
Estimate bias adjustment for recruitment deviates
Split apart bootstrap data to make input file.
read control file
visualize parameterization of cubic spline selectivity in SS
Summarize the output from multiple Stock Synthesis models.
Plot fit to discard fraction.
Make plots from Rebuilder program
Plot composition data and fits.
Create HTML files to view figures in browser.
Plot points with confidence intervals.
Plot tagging data and fits
write starter file
write data file
write control file
Updates r4ss files to newest versions on web.
R tools for Stock Synthesis
Summarize nuisance MCMC output
plot many quantities related to output from Stock Synthesis
Insert a vector of recruitment deviations into the control
file.
Plot uncertainty around chosen selectivity ogive from MCMC.
make a list for SS data
make table comparing quantities across models
Create a bubble plot.
Show movement rates on a map.
write forecast file
plot model comparisons
plot many quantities related to output from Stock Synthesis
function "stackpoly" by Jim Lemon from "plotrix" package
Compute and Plot a 2-Dimensional Histogram
Show movement rates on a map.
Get output from multiple Stock Synthesis models.
Summarize, analyze and plot key MCMC output.
A function to visual parameterization of double normal and
double logistic selectivity in Stock Synthesis
explore movement parameterizations
a function for drawing selecitivity curves
Plot indices of abundance and associated quantities.
Plot distributions of priors, posteriors, and estimates.
Create multi-figure plots.
Change parameters in the control file.
Get parameter lines from Stock Synthesis control file
Run a likelihood profile in Stock Synthesis.
read forecast file
Make a vector of colors.
Plot recruitment deviations
Plot biology related quantities.
Plot SPR quantities.
Plot timeseries data
Make shaded polygons with a mountain-like appearance
Plot of recruitment distribution among areas and seasons
Plot mean weight data and fits.
read starter file
Create a plot for the TSC report
Plot numbers-at-age related data and fits.
Plot catch related quantities.
Plot yield and surplus production.
Plot selectivity
Add a model to the list of models to compare
Read MCMC output.
read data file
Plot spawner-recruit curve.