Function reference • SAMSE

All functions

AddSeasonal_RS(): Genarate OM with On- and Off-Season Fleets - Red Snapper

Aggregate_Fleets(): Compare the F trends from BAM and openMSE

Calc_GG_Ref_Points(): Calculate Reference Points for Gag Grouper

Calc_RS_Ref_Points(): Calculate Reference Points for Red Snapper

Calculate_F(): Title

Calculate_Ref_Points(): Calculate Biological Reference Points

Compare_Biomass(): Compare the biomass trends from BAM and openMSE

Compare_Catch(): Compare the landings & discards from BAM and openMSE

Compare_F(): Compare the F trends from BAM and openMSE

Fleet_MMP(): Generic MMP for SAMFC

Ftarget() Ftarget_IncRecEff(): Example fixed F MP that sets the F for each stock to the MFMT

Generate_Future_Rec_Devs(): Update Recruitment Deviations in the projection years

Landings_10(): Mean Landings (t) in first 10 years

Landings_20(): Mean Landings (t) in last 10 years

Landings_Removals(): Mean ratio of landings to total removals

P_MFMT(): Probability F < MFMT

P_MSST(): Probability SB > MSST

P_rebuild(): Probability of rebuilding to target level by end of projection period

Shiny(): Run the SAFMC Shiny Application

StatusQuo() StatusQuo_IncRecEff() RecEff20() RecEff20_IncRecEff() RecEff40() RecEff40_IncRecEff() MLL20_25() MLL20_25_IncRecEff() MLL25_25() MLL25_25_IncRecEff(): Example fixed F MP that sets F for each fleet to the mean from the last 3 historical years

TradeOff(): Trade-Off Plot of Two Performance Metrics

calc_seasons_RS_Comm() calc_seasons_RS_HB(): Calculate removals by season for Red Snapper Commercial handline

calculate_allocation(): Title

combineFleets(): Combine Discard and Landing Fleets in an MOM object

fixedC_mean3(): Example fixed catch MP (removals)

plot_Catch(): Plot Landings and Discards from Projection Period

plot_Catch_Discards(): Plot Landings and Discards

plot_Fmort(): Plot Total Fishing Mortality

plot_SB(): Plot Spawning Stock and Reference Pints

structure_OM(): Create Seasonal Fleet Structured OM from BAM Assessment