MSEtool
Management Strategy Evaluation Toolkit
Simulation tools for management strategy evaluation are provided for the 'DLMtool' operating model to inform data-rich fisheries. 'MSEtool' provides complementary assessment models of varying complexity with standardized reporting, diagnostic tools for evaluating assessment models within closed-loop simulation, and helper functions for building more complex operating models and model-based management procedures.
MSEtool is an extension of the DLMtool R package and provides simulation tools for management strategy evaluation informing data-rich fisheries. Find more information about DLMtool and MSEtool at http://datalimitedtoolkit.org/.
Installation
The released version of MSEtool can be downloaded from CRAN:
install.packages("MSEtool")
This GitHub repository contains the development version of MSEtool, which can be installed via:
devtools::install_github("tcarruth/MSEtool")
The development version may be unstable and it is typically not recommended for analyses.
User Guide
Vignettes describing the features of MSEtool can be obtained via:
browseVignettes("MSEtool")
A User Guide for the DLMtool package also available at https://dlmtool.github.io/DLMtool/userguide/introduction.html.
Bugs and Issues
Please report any bugs or issues through GitHub or the DLMtool website.
News
MSEtool 1.1.0
New additions, including:
- Re-parameterization of dome selectivity in SCA so that estimated parameters are age-based after transformation.
- Additional argument in SCA for lognormal distribution for age comps.
- A more efficient method is used to report convergence diagnostics of assessment models when running in closed-loop simulation.
Minor edits, including:
- By default, steepness is now fixed in the SCA and SCA2 assessment functions.
- By default, nine data-rich MPs are now included in the package. See the help documentation: ?
Data-rich-MP - A generic function for ramped harvest control rules (
HCR_ramp) is now included. Users can input the desired limit and target reference points. make_MPadds dependencies to the MP so thatDLMtool::Requiredreturns the appropriate dependencies. Dependencies are dynamic based on the configuration of the assessment model. For example,[email protected]is a dependency for a SCA-based model only if steepness is fixed.
MSEtool 1.0.0
- Initial CRAN release.
- Assessment models: Delay-Difference (DD_TMB, DD_SS); Surplus Production (SP, SP_SS); Statistical Catch-at-Age (SCA, SCA2)
- Harvest control rules: HCR_MSY, HCR40_10, HCR60_20
simmovfunction for multiple-area movement models (age-independent)- Functions for converting Stock Synthesis and iSCAM assessments to OM and Data objects (classes inherited from DLMtool)