Package index
-
AHA() - All-H Analyzer
-
Bio-class - Class
"Bio" -
CM2SOM() - Convert conditioning model to operating model
-
get_report()get_CMdata()CM_trace()CM_pairs()CM_fit_esc()CM_fit_pHOS()CM_fit_CWTesc()CM_fit_CWTcatch()CM_maturity()CM_vul()CM_SRR()CM_prod()CM_Srep()CM_M()CM_Megg()CM_Njuv()CM_recr()CM_esc()CM_F()CM_surv()CM_wt()CM_surv2()CM_wto()CM_ER()CM_CWT_ER()CM_covariate() - Figures for conditioning model results
-
Habitat-class - Class
"Habitat" -
Harvest-class - Class
"Harvest" -
Hatchery-class - Class
"Hatchery" -
Historical-class - Class
"Historical" -
PNI50()PNI80()WILD50()SMSY85()Sgen100() - Example performance metrics
-
SHist-class - Class
"SHist" -
SMSE-class - Class
"SMSE" -
SOM-classSOM - Class
"SOM" -
calc_SRR() - Calculate abundance from density-dependent mortality
-
calc_SRRpars() - Convert density-dependent survival parameters
-
calc_Smsy_Ricker()calc_Umsy_Ricker()calc_Sgen_Ricker() - Ricker reference points
-
calc_ref()calc_MSY()calc_Sgen() - Reference points
-
calc_smolt() - Smolt production
-
check_SOM() - Check inputs to SOM object
-
compare_spawners()compare_fitness()compare_escapement() - Compare simulation runs
-
fit_CM()sample_CM() - Fit conditioning model to historical data
-
glossary - salmonMSE glossary
-
plot_LHG()plot_RS() - Plot life history groups and release strategies
-
plot_decision_table() - Decision table of performance metrics
-
plot_statevar_ts()plot_statevar_hist()plot_spawners()plot_fitness()plot_escapement()plot_fishery()plot_Kobe() - Plot core output from salmonMSE
-
plot_tradeoff() - Tradeoff figure
-
report(<SMSE>) - Generate markdown reports
-
report_CM() - Conditioning model markdown report
-
make_Harvest_MMP()MMSE2SMSE()SOM2MOM()make_Stock()make_Fleet()multiHist2SHist() - Internal salmonMSE functions for converting operating model inputs and outputs
-
salmonMSE() - Run salmonMSE
-
salmonMSE_env - Environment to store salmon specific variables, e.g, fitness, during the simulation