Files in tcarruth/MSEtool
Management Strategy Evaluation Toolkit

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
MSEtool.Rproj
NAMESPACE
NEWS.md R/Ancillary_Indicators.R R/Awatea2OM.R R/CASAL2OM.R R/HCRs.R R/MMSE_Object.R R/MMSE_plots.R R/MOM_functions.R R/MOM_object.R R/MOM_plots.R R/MSEtool-package.R R/Misc_fun.R R/Movement_calcs.R R/SRA_scope.R R/SRA_scope_data.R R/SS2Data.R R/SS2MOM.R R/SS2OM.R R/SSinternal.R R/Single_stock_multi_q_REDUNDANT.R R/VPA2OM.R R/applyMMP.R R/assess_DD.R R/assess_SCA.R R/assess_SCA2.R R/assess_SCA_Pope.R R/assess_SP.R R/assess_SSS.R R/assess_VPA.R R/assess_cDD.R R/define_S4_class_SRA.R R/define_S4_class_assess.R R/define_S4_class_profile.R R/define_S4_class_project.R R/define_S4_class_retro.R R/define_S4_generic_SRA_scope.R R/diagnostic_AM.R R/document_data.R R/iSCAM2OM.R R/multiMSE.R R/multiMSE_internal.R R/multi_q_estimation.R R/popdyn_MICE.R R/report_DD_TMB.R R/report_SCA.R R/report_SCA_Pope.R R/report_SP.R R/report_SSS.R R/report_VPA.R R/report_auxiliary.R R/report_cDD.R R/report_spict.R R/retrospective_AM.R R/rmd_report.R R/z_MPs.R README.md data-raw/Albacore_TwoFleet.R data-raw/swordfish.R
data-raw/swordfish.csv
data/Albacore_TwoFleet.rda
data/swordfish.rda
inst/include/DD.hpp
inst/include/SCA.hpp
inst/include/SCA2.hpp
inst/include/SCA_Pope.hpp
inst/include/SP.hpp
inst/include/SRA_scope.hpp
inst/include/VPA.hpp
inst/include/cDD.hpp
inst/include/functions.hpp
inst/include/grav.hpp
inst/include/grav_Pbyarea.hpp
inst/include/ns/ns_SCA.hpp
inst/include/ns/ns_SP.hpp
inst/include/ns/ns_SRA_scope.hpp
inst/include/ns/ns_VPA.hpp
inst/include/ns/ns_cDD.hpp
inst/rmarkdown_templates/SS2OM.Rmd man/Albacore_TwoFleet.Rd man/Assessment-class.Rd man/Awatea2OM.Rd man/CASAL2OM.Rd man/CASALpars.Rd man/DD_TMB.Rd man/HCR_FB.Rd man/HCR_MSY.Rd man/HCR_ramp.Rd man/HCRlin.Rd man/HistMICE.Rd man/MMSE-class.Rd man/MOM-class.Rd man/MPCalcsNAs.Rd man/MSEtool-package.Rd man/Model-based-MP.Rd man/NIL.Rd man/PRBcalc.Rd man/Probs.Rd man/ResFromRel.Rd man/SCA.Rd man/SIL.Rd man/SOL.Rd man/SP.Rd man/SP_production.Rd man/SRA-class.Rd man/SRA_scope.Rd man/SS2Data.Rd man/SS2MOM.Rd man/SS2OM.Rd man/SSS.Rd man/TAC_MSY.Rd man/TEG.Rd man/VPA.Rd man/VPA2OM.Rd man/avail.Rd man/cDD.Rd man/compare_models.Rd man/diagnostic_AM.Rd man/expandHerm.Rd man/fetch.file.names.Rd man/getinds.Rd man/getnIVs.Rd man/getq_multi.Rd man/getq_multi_MICE.Rd man/hrate.Rd man/iSCAM2Data.Rd man/iSCAM2OM.Rd man/iSCAMcomps.Rd man/iSCAMinds.Rd man/ldim.Rd man/load.iscam.files.Rd man/mahplot.Rd man/make_MP.Rd man/makemov.Rd man/multiData.Rd man/multiDataS.Rd man/multiMSE.Rd man/multidebug.Rd man/optQ_multi.Rd man/plot.Assessment.Rd man/plot.MMSE.Rd man/plot.MOM.Rd man/plot.SRA.Rd man/plot.prof.Rd man/plot.retro.Rd man/plotRel.Rd man/plot_SR.Rd man/plot_betavar.Rd man/plot_composition.Rd man/plot_crosscorr.Rd man/plot_lognormalvar.Rd man/plot_residuals.Rd man/plot_steepness.Rd man/plot_timeseries.Rd man/plotmulti.Rd man/plotquant.Rd man/popdynMICE.Rd man/popdynOneMICE.Rd man/prelim_AM.Rd man/prof-class.Rd man/profile.Rd man/project-class.Rd man/projection.Rd man/qestMICE.Rd man/read.control.file.Rd man/read.data.file.Rd man/read.mcmc.Rd man/read.par.file.Rd man/read.projection.file.Rd man/read.report.file.Rd man/retro-class.Rd man/retrospective.Rd man/retrospective_AM.Rd man/simmov.Rd man/summary.Assessment.Rd man/swordfish.Rd man/tinyErr.Rd man/userguide.Rd
src/MSEtool.cpp
tests/Data_files/Data_ORH7A.csv
tests/Data_files/GulfMenhaden_Data.csv
tests/Data_files/MERA_TokyoBayData.csv
tests/Data_files/Tiger_flathead_data.csv
tests/Data_files/Yellow_striped_MPerf.csv
tests/Data_files/dat.rda
tests/manual_tests.R tests/test-DD_Assess.R tests/test-Data2SRA.R tests/test-Hist.R tests/test-MSE.R tests/test-SCA_Assess.R tests/test-SP_Assess.R tests/test-SRA_scope.R tests/test-SS2Data.R tests/test-SS2OM.R tests/test-SS2OMa.R tests/test-projection.R
vignettes/DLMtool_logo.png
vignettes/Delay_difference.Rmd vignettes/MSEtool.Rmd vignettes/SCA.Rmd vignettes/SRA_scope.Rmd vignettes/SRA_scope_eq.Rmd vignettes/SRA_scope_sel.Rmd vignettes/Surplus_production.Rmd vignettes/VPA.Rmd
vignettes/fig_assess/DD_TAC.png
vignettes/fig_assess/DD_Tplot2.png
vignettes/fig_assess/DD_diagnostic_AM.png
vignettes/fig_assess/DD_profile.png
vignettes/fig_assess/DD_retrospective_AM.png
vignettes/fig_assess/DLMtool_design.png
vignettes/fig_assess/DLMtool_process.jpg
vignettes/fig_assess/MSEtool_design.png
vignettes/fig_multiMSE/MICE.png
vignettes/fig_multiMSE/MICE_F.png
vignettes/fig_multiMSE/MICE_sel.png
vignettes/fig_multiMSE/MICE_stock.png
vignettes/multiMSE.Rmd
tcarruth/MSEtool documentation built on Sept. 16, 2020, 5:59 a.m.