Package index • SAMSE

All functions

Add_Spatial_Effort(): Add Fishing Effort Spatial Distribution to MOM

Add_Spatial_to_OM(): Add Spatial Distribution to an Operating Model

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

Calculate_Ref_Points() Calc_RS_Ref_Points() Calc_GG_Ref_Points() Calc_BS_Ref_Points(): Calculate Biological Reference Points from a single stock multiHist object

Combine_OMs(): Combine Multiple Single-Stock MOM objects into one Multi-Stock MOM

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

Generate_Correlated_Rec_Devs() Plot_Correlated_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

Create_Rec_List() Get_Year_Info() Adjust_Effort() Close_Areas() Effort_Creep() SQ() SQ_NS() SQ_OS() SQ_FR() SQ_FR_NS() SQ_FR_OS() SQ_MLL() SQ_MLL_NS() SQ_MLL_OS() SQ_FR_MLL() SQ_FR_MLL_NS() SQ_FR_MLL_OS(): Management Procedures

P_MFMT(): Probability F < MFMT

P_MSST(): Probability SB > MSST

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

Plot_Prob_Rebuild() PM_plots() SSB_plot() trade_off_plot(): PM Plotting Functions

Process_Results(): Create data.frames of MSE results and save to disk

Shiny(): Run the SAFMC Shiny Application

Spatial_Area_Definition(): Extract Lat Longs for Spatial Areass

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

Write_MPs() Write_MPs_effort_creep() Source_MPs(): Write MP functions

get_MLL(): Return the minimum legal length (MLL) for a given stock

get_rebuild_year(): Get the rebuilding target year

get_stock_status() get_F() get_landings_discards() get_selectivity_retention() get_rec_devs(): Extracts stock status (SSB/MSST and F/MFMT) from BAM output

lower_rec_effort(): Reduce Gen Rec Landings & Discards and run BAM model

modify_adult_M(): Modify M and run BAM model