Package index • salmonMSE

All functions

AHA(): All-H Analyzer

Bio-class: Class "Bio"

CM2SOM(): Convert conditioning model to operating model

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-class SOM: Class "SOM"

calc_SRR(): Calculate abundance from density-dependent mortality

calc_SRRpars(): Convert density-dependent survival parameters

calc_ref(): 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_decision_table(): Decision table of performance metrics

plot_statevar_ts() plot_statevar_hist() plot_spawners() plot_fitness() plot_escapement() plot_fishery() plot_Kobe(): Plot output from salmonMSE

plot_tradeoff(): Tradeoff figure

report(<SMSE>): Generate markdown reports

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