MMSE-class: Class "MMSE"
In Blue-Matter/MSEtool: Management Strategy Evaluation Toolkit

MMSE-class

R Documentation

Class `'MMSE'`

Description

A Multi Management Strategy Evaluation object that contains information about simulation conditions and performance of MPs for a multi-stock, multi-fleet operating model.

Slots

Name: Name of the MMSE object. Single value. Character string
nyears: The number of years for the historical simulation. Single value. Positive integer
proyears: The number of years for the projections - closed loop simulations. Single value. Positive integer
nMPs: Number of management procedures simulation tested. Single value. Positive integer.
MPs: The names of the MPs that were tested. Vector of length nMPs. Character strings.
MPcond: The MP condition. Character ('bystock': an MP per stock, 'byfleet' and MP per stock and fleet, 'MMP' an MP for all stocks and fleets)
MPrefs: The names of the MPs applied for each stock (row) and fleet (column). An array.
nsim: Number of simulations. Single value. Positive integer
nstocks: Number of stocks. Single value. Positive integer
nfleets: Number of fleets. Single value. Positive integer
Snames: Names of the stocks
Fnames: Names of the fleets (matrix nstocks x nfleets)
Stocks: The stock operating model objects. List of Stocks
Fleets: The fleet operating model objects. Hierarchical list, fleets nested in stocks.
Obss: The fleet specific observation error operating model objects. Hierarchical list, fleets nested in stocks.
Imps: The fleet specific implementation error operating model objects. Hierarchical list, fleets nested in stocks.
OM: A table of sampled parameters of the operating model. Data frame of nsim rows.
Obs: A table of sampled parameters of the observation model. Data frame of nsim rows.
SB_SBMSY: Simulated spawning biomass relative to SBMSY over the projection. An array with dimensions: nsim, nStocks, nMPs, proyears. Non-negative real numbers
F_FMSY: Simulated fishing mortality rate relative to FMSY over the projection. An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
N: Simulated stock numbers over the projection. An array with dimensions: nsim, nStocks, maxage+1, nMPs, proyears, nareas. Non-negative real numbers
B: Simulated stock biomass over the projection. An array with dimensions: nsim, nStocks, nMPs, proyears. Non-negative real numbers
SSB: Simulated spawning stock biomass over the projection. An array with dimensions: nsim, nStocks, nMPs, proyears. Non-negative real numbers
VB: Simulated vulnerable biomass over the projection. An array with dimensions: nsim, nStocks, nMPs, proyears. Non-negative real numbers
FM: Simulated fishing mortality rate over the projection. An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
SPR: A list of SPR values. Currently not used.
Catch: Simulated catches (landings) over the projection. An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
Removals: Simulated removals (landings+discards) over the projection. An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
Effort: Simulated relative fishing effort in the projection years. An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
TAC: Simulated Total Allowable Catch (prescribed) over the projection (this is NA for input controls). An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
TAE: Simulated Total Allowable Effort (prescribed) over the projection (this is NA for output controls). An array with dimensions: nsim, nStocks, nFleets, nMPs, proyears. Non-negative real numbers
BioEco: A named list of bio-economic output. Not currently used.
RefPoint: Named list of annual MSY reference points MSY, FMSY, and SBMSY. Array with dimensions: nsim, nstocks, nMPs, nyears+proyears. Will be the same as multiHist@Ref$ByYear unless selectivity is changed by MP
multiHist: The object of class multiHist containing information from the spool-up period.
PPD: Posterior predictive data. List of Data objects at the end of the projection period (length nMPs)
Misc: Miscellaneous output such as posterior predictive data

Objects from the Class

Objects can be created by calls of the form new('MMSE', Name, nyears, proyears, nMPs, MPs, nsim, OMtable, Obs, B_BMSYa, F_FMSYa, Ba, FMa, Ca, OFLa, Effort, PAA, CAA, CAL, CALbins)