Management Strategy Evaluation Toolkit

Global functions | |
---|---|

AAV | Source code |

Albacore_TwoFleet | Man page |

Assess_I_hist | Source code |

Assess_diagnostic | Source code |

Assessment | Man page |

Assessment-class | Man page |

Awatea2OM | Man page Source code |

AwateaRead | Source code |

CASAL2OM | Man page Source code |

CASALpars | Man page Source code |

CombineMMP | Source code |

DDSS_4010 | Man page |

DDSS_75MSY | Man page |

DDSS_MSY | Man page |

DD_ | Source code |

DD_SS | Man page Source code |

DD_TMB | Man page Source code |

Data-rich-MP | Man page |

Euler_Lotka_fn | Source code |

HCR40_10 | Man page Source code |

HCR60_20 | Man page Source code |

HCR_FB | Man page Source code |

HCR_MSY | Man page Source code |

HCR_ramp | Man page Source code |

HCRlin | Man page Source code |

HistMICE | Man page Source code |

LinInt | Source code |

MMSE-class | Man page |

MOM-class | Man page |

MP | Man page |

MPCalcsNAs | Man page Source code |

MSEtool | Man page |

MSEtool-package | Man page |

Model-based-MP | Man page |

Mohn_rho | Source code |

NIL | Man page Source code |

PRBcalc | Man page Source code |

PRBplot | Source code |

Probs | Man page Source code |

R_pred | Source code |

ResFromRel | Man page Source code |

SCA | Man page Source code |

SCA2 | Man page Source code |

SCA_4010 | Man page |

SCA_75MSY | Man page |

SCA_MSY | Man page |

SCA_MSY_calc | Source code |

SCA_Pope | Man page Source code |

SCA_Pope_MSY_calc | Source code |

SCA_catch_solver | Source code |

SCA_refpt_calc | Source code |

SIL | Man page Source code |

SOL | Man page Source code |

SP | Man page Source code |

SP_ | Source code |

SP_4010 | Man page |

SP_75MSY | Man page |

SP_Fox | Man page Source code |

SP_MSY | Man page |

SP_SS | Man page Source code |

SP_catch_solver | Source code |

SP_production | Man page Source code |

SRA | Man page |

SRA-class | Man page |

SRA_dynamic_SSB0 | Source code |

SRA_get_likelihoods | Source code |

SRA_posthoc_adjust | Source code |

SRA_retro | Source code |

SRA_retro_subset | Source code |

SRA_scope | Man page |

SRA_scope,OM,Data-method | Man page |

SRA_scope,OM,list-method | Man page |

SRA_scope_est | Source code |

SRA_scope_int | Source code |

SRA_tiny_comp | Source code |

SRopt | Source code |

SS2Data | Man page Source code |

SS2Data_get_comps | Source code |

SS2Data_get_index | Source code |

SS2MOM | Man page Source code |

SS2MOM_fleet | Source code |

SS2MOM_stock | Source code |

SS2OM | Man page Source code |

SSS | Man page Source code |

SSS_4010 | Man page |

SSS_75MSY | Man page |

SSS_MSY | Man page |

SS_import | Source code |

SS_steepness | Source code |

Sub_cpars | Man page Source code |

TAC_MSY | Man page Source code |

TEG | Man page Source code |

VPA | Man page Source code |

VPA2OM | Man page Source code |

applyMMP | Source code |

assign_Assessment_slots | Source code |

avail | Man page Source code |

cDD | Man page Source code |

cDD_ | Source code |

cDD_SS | Man page Source code |

cDD_catch_solver | Source code |

calc.mcmc | Source code |

calculate_Mohn_rho | Source code |

calculate_TAC | Man page Source code |

check_OM_for_sampling | Source code |

compare_SRA | Man page Source code |

compare_models | Man page Source code |

diagnostic_AM | Man page Source code |

expandHerm | Man page Source code |

expand_comp_matrix | Source code |

extract.area.sex.matrices | Source code |

extract.group.matrices | Source code |

extreme.outlier | Source code |

fetch.file.names | Man page Source code |

getDataList | Source code |

getGpars | Source code |

getGpars_r4ss_124 | Source code |

getGpars_r4ss_134 | Source code |

getSR | Source code |

get_MSY_DD | Source code |

get_MSY_cDD | Source code |

get_s_vul_len | Source code |

get_sdreport | Source code |

get_vul_len | Source code |

getclass | Source code |

getfirstlev | Source code |

getinds | Man page Source code |

getnIVs | Man page Source code |

getq_multi | Man page Source code |

getq_multi_MICE | Man page Source code |

getsegment | Source code |

hrate | Man page Source code |

iSCAM2Data | Man page Source code |

iSCAM2OM | Man page Source code |

iSCAMcomps | Man page Source code |

iSCAMinds | Man page Source code |

iVB | Source code |

ilogit | Source code |

ilogitm | Source code |

int_s_sel | Source code |

int_sel | Source code |

ldim | Man page Source code |

load.iscam.files | Man page Source code |

logit | Source code |

mahalanobis_contribution | Source code |

mahdensplot | Source code |

mahplot | Man page Source code |

make_LWT | Source code |

make_MP | Man page Source code |

makemov | Man page Source code |

match_R_years | Source code |

matrix_slot_fn | Source code |

mu | Source code |

multiData | Man page Source code |

multiDataS | Man page Source code |

multiMSE | Man page Source code |

multiMSE_int | Source code |

multidebug | Man page Source code |

negcorlogspace | Source code |

nlz | Source code |

optQ_multi | Man page Source code |

optSR | Source code |

optimize_TMB_model | Source code |

par_identical_sims_fn | Source code |

plot,Assessment,missing-method | Man page |

plot,Assessment,retro-method | Man page |

plot,MMSE,missing-method | Man page |

plot,MOM,missing-method | Man page |

plot,SRA,missing-method | Man page |

plot,prof,missing-method | Man page |

plot,retro,missing-method | Man page |

plot.Assessment | Man page |

plot.MMSE | Man page |

plot.MOM | Man page |

plot.SRA | Man page |

plot.prof | Man page |

plot.retro | Man page |

plotRel | Man page Source code |

plot_Kobe | Source code |

plot_SR | Man page Source code |

plot_betavar | Man page Source code |

plot_composition | Man page Source code |

plot_composition_SRA | Source code |

plot_crosscorr | Man page Source code |

plot_generic_at_age | Source code |

plot_hessian_convergence | Source code |

plot_iter | Source code |

plot_lognormalvar | Man page Source code |

plot_max_gr | Source code |

plot_mov | Man page Source code |

plot_msg | Source code |

plot_normalvar | Source code |

plot_ogive | Source code |

plot_residuals | Man page Source code |

plot_steepness | Man page Source code |

plot_surplus_production | Source code |

plot_timeseries | Man page Source code |

plot_yield_DD | Source code |

plot_yield_SCA | Source code |

plot_yield_SCA_Pope | Source code |

plot_yield_SP | Source code |

plot_yield_VPA | Source code |

plot_yield_cDD | Source code |

plotmulti | Man page Source code |

plotquant | Man page Source code |

popdynMICE | Man page Source code |

popdynOneMICE | Man page Source code |

powdif | Source code |

prelim_AM | Man page Source code |

process_AddIndType | Source code |

process_AddIndV | Source code |

prof | Man page |

prof-class | Man page |

profile | Man page |

profile,Assessment-method | Man page |

profile_likelihood_DD_TMB | Source code |

profile_likelihood_SCA | Source code |

profile_likelihood_SCA2 | Source code |

profile_likelihood_SP | Source code |

profile_likelihood_SSS | Source code |

profile_likelihood_VPA | Source code |

profile_likelihood_cDD | Source code |

profile_likelihood_spict | Source code |

project | Man page |

project-class | Man page |

projection | Man page Source code |

projection_DD_SS | Source code |

projection_SCA2 | Source code Source code |

projection_SCA_Pope | Source code |

projection_SCA_internal | Source code |

projection_SP | Source code |

projection_VPA | Source code |

projection_VPA_internal | Source code |

projection_cDD_SS | Source code |

pull_AddInd | Source code |

pull_Ind | Source code |

pull_Index | Source code |

qestMICE | Man page Source code |

r_prior_fn | Source code |

read.control.file | Man page Source code |

read.data.file | Man page Source code |

read.mcmc | Man page Source code |

read.par.file | Man page Source code |

read.projection.file | Man page Source code |

read.report.file | Man page Source code |

report | Source code |

rescale_report | Source code |

retro | Man page |

retro-class | Man page |

retrospective | Man page |

retrospective,Assessment-method | Man page |

retrospective,SRA-method | Man page |

retrospective_AM | Man page Source code |

retrospective_DD_SS | Source code |

retrospective_DD_TMB | Source code |

retrospective_SCA | Source code |

retrospective_SCA2 | Source code |

retrospective_SCA_Pope | Source code |

retrospective_SP | Source code |

retrospective_SP_SS | Source code |

retrospective_SSS | Source code |

retrospective_VPA | Source code |

retrospective_cDD | Source code |

retrospective_cDD_SS | Source code |

retrospective_spict | Source code |

rmd_B | Source code |

rmd_B_B0 | Source code |

rmd_B_B0_terminal | Source code |

rmd_B_BMSY | Source code |

rmd_B_BMSY_terminal | Source code |

rmd_C_at_age | Source code |

rmd_C_mean_age | Source code |

rmd_DD_SS | Source code |

rmd_DD_TMB | Source code |

rmd_F | Source code |

rmd_FMSY | Source code |

rmd_F_FMSY | Source code |

rmd_F_FMSY_terminal | Source code |

rmd_Kobe | Source code |

rmd_LAA | Source code |

rmd_LW | Source code |

rmd_MSY | Source code |

rmd_N | Source code |

rmd_N_at_age | Source code |

rmd_R | Source code |

rmd_R0 | Source code |

rmd_SCA | Source code |

rmd_SCA2 | Source code |

rmd_SCA_Pope | Source code |

rmd_SP | Source code |

rmd_SP_SS | Source code |

rmd_SR | Source code |

rmd_SRA_D | Source code |

rmd_SRA_Find | Source code |

rmd_SRA_Perr | Source code |

rmd_SRA_R0 | Source code |

rmd_SRA_R_output | Source code |

rmd_SRA_SR | Source code |

rmd_SRA_SSB_output | Source code |

rmd_SRA_fleet_output | Source code |

rmd_SRA_initD | Source code |

rmd_SRA_retrospective | Source code |

rmd_SRA_sel | Source code |

rmd_SRA_survey_output | Source code |

rmd_SSB | Source code |

rmd_SSB_SSB0 | Source code |

rmd_SSB_SSBMSY | Source code |

rmd_SSS | Source code |

rmd_U | Source code |

rmd_U_UMSY | Source code |

rmd_VPA | Source code |

rmd_WAA | Source code |

rmd_assess_fit | Source code |

rmd_assess_fit2 | Source code |

rmd_assess_fit_series | Source code |

rmd_assess_qq | Source code |

rmd_assess_resid | Source code |

rmd_assess_timeseries | Source code |

rmd_at_age | Source code |

rmd_bubble | Source code |

rmd_cDD | Source code |

rmd_cDD_SS | Source code |

rmd_data_age_comps | Source code |

rmd_data_timeseries | Source code |

rmd_dynamic_SSB0 | Source code |

rmd_fit_age_comps | Source code |

rmd_fit_comps | Source code |

rmd_footer | Source code |

rmd_h | Source code |

rmd_head | Source code |

rmd_log_rec_dev | Source code |

rmd_mat | Source code |

rmd_matplot | Source code |

rmd_meanR | Source code |

rmd_persp_plot | Source code |

rmd_residual | Source code |

rmd_retrospective | Source code |

rmd_sel | Source code |

rmd_sel_annual | Source code |

rmd_sel_persp | Source code |

rmd_sp | Source code |

rmd_spict | Source code |

rmd_spict_FMSY | Source code |

rmd_spict_yield_header | Source code |

rmd_summary | Source code |

rmd_yield_F | Source code |

rmd_yield_U | Source code |

rmd_yield_depletion | Source code |

sample_recruitment | Source code |

sample_steepness3 | Source code |

sdreport_int | Source code |

simmov | Man page Source code |

slp | Source code |

slp2 | Source code |

squeeze | Source code |

strip.areas.groups | Source code |

strip.static.params | Source code |

summary,Assessment-method | Man page |

summary,retro-method | Man page |

summary.Assessment | Man page |

summary.retro | Man page |

summary_DD_SS | Source code |

summary_DD_TMB | Source code |

summary_SCA | Source code |

summary_SCA2 | Source code |

summary_SCA_Pope | Source code |

summary_SP | Source code |

summary_SP_SS | Source code |

summary_SSS | Source code |

summary_VPA | Source code |

summary_cDD | Source code |

summary_cDD_SS | Source code |

summary_spict | Source code |

swordfish | Man page |

tinyErr | Man page |

tinyErr,MOM-method | Man page |

tinyErr_MOM | Source code |

ts_matplot | Source code |

update_SRA_data | Source code |

userguide | Man page Source code |

validateTMB | Source code |

vec_slot_fn | Source code |

vector2char | Source code |

vul_fn | Source code |

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