Man pages for salmonMSE
Management Strategy Evaluation for Salmon Species
| AHA | All-H Analyzer |
| Bio-class | Class '"Bio"' |
| brood_func | Brood function |
| calc_broodtake | Solve for broodtake numbers |
| calc_phi | Calculate equilibrium quantities with life history groups |
| calc_pwild_age | Proportion wild spawners |
| calc_ref | Reference points |
| calc_smolt | Smolt production |
| calc_Smsy_Ricker | Ricker reference points |
| calc_spawners | Calculate spawners after broodtake |
| calc_SRR | Calculate abundance from density-dependent mortality |
| calc_SRRpars | Convert density-dependent survival parameters |
| calc_yearling | Calculate hatchery releases |
| catch_func | Catch function |
| check_SOM | Check inputs to SOM object |
| CM2SOM | Convert conditioning model to operating model |
| CMfigures | Figures for conditioning model results |
| CM_int | Estimation function for conditioning model |
| CM_MSY | Plot reference points from conditioning model |
| compare | Compare scenarios in markdown |
| compare_spawners | Compare simulation runs |
| compare_statevar_ts | Compare state variables from simulation runs |
| define_hatchery_args | Create list of parameters |
| Deprecated | Deprecated functions |
| dot-CM_ER | Calculate exploitation rate in conditioning model |
| dot-CM_prod | Reference points for conditioning model |
| dot-egg_func | Egg production function |
| Effort_solver | Solve for fishing effort |
| fit_CM | Fit conditioning model to historical data |
| fitness_func | Calculate mean phenotype and fitness |
| get_F | Calculate F from harvest rate |
| glossary | salmonMSE glossary |
| Habitat-class | Class '"Habitat"' |
| Harvest-class | Class '"Harvest"' |
| Hatchery-class | Class '"Hatchery"' |
| Historical-class | Class '"Historical"' |
| nextgen_SRR_func | Spawning and early life stage function |
| plot_decision_table | Decision table of performance metrics |
| plot_LHG | Plot life history groups and release strategies |
| plot_statevar_ts | Plot core output from salmonMSE |
| plot_tradeoff | Tradeoff figure |
| P_PNI50 | Example performance metrics |
| report | Generate markdown reports |
| report_CM | Conditioning model markdown report |
| salmonMSE | Run salmonMSE |
| salmonMSE_env | Environment to store salmon specific variables, e.g, fitness,... |
| simple_SOM | Example objects from salmonMSE |
| simpleSOM-class | Class '"simpleSOM"' |
| SMSE-class | Class '"SMSE"' |
| SOM-class | Class '"SOM"' |
| stray_func | Internal stray function |
