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r4ss (version 1.06)

R code for Stock Synthesis

Description

Functions for reading output, plotting, exploring and manipulating input files for Richard Methot's Stock Synthesis fisheries stock assessment modeling platform.

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Version

Install

install.packages('r4ss')

Monthly Downloads

611

Version

1.06

License

MIT License

Maintainer

Ian Taylor

Last Published

May 16th, 2010

Functions in r4ss (1.06)

DoProjectPlots

Make plots from Rebuilder program

r4ss-package

R tools for Stock Synthesis

SSv3_plotpars

Plot distributions of priors, posteriors, and estimates.

SSsummarize

Summarize the output from multiple Stock Synthesis models.

update_r4ss_files

Updates r4ss files to newest versions on web.

movepars

A function to visual parameterization of movement in Stock Synthesis

sel.line

a function for drawing selecitivity curves

SS_recdevs

Insert a vector of recruitment deviations into the control file.

SS_changepars

Change parameters in the control file.

SS_profile

Run a likelihood profile in Stock Synthesis.

SS_parlines

Get parameter lines from Stock Synthesis control file

SSgetoutput

Get output from multiple Stock Synthesis models.

SSv3_output

A function to create a list object for the output from Stock Synthesis

SSv3_plots

function to plot many quantities related to output from Stock Synthesis

selfit

A function to visual parameterization of double normal and double logistic selectivity in Stock Synthesis

SSrunsims

Run a collection of simulations for Stock Synthesis.

SSv3_FishGraph

A function for converting Stock Synthesis output to the format used by FishGraph

SS_fitbiasramp

Estimate bias adjustment for recruitment deviates

SS_splitdat

Split apart bootstrap data to make input file.