Hist-class: Class "Hist"

In Blue-Matter/MSEtool: Management Strategy Evaluation Toolkit

Class 'Hist'

Description

An object for storing information generated by the end of the historical simulations

Slots

Data

The Data object at the end of the historical period

OMPars

A numeric data.frame with nsim rows with sampled Stock, Fleet, Obs, and Imp parameters.

AtAge

A named list with arrays of dimensions: c(nsim, maxage+1, nyears+proyears) or c(nsim, maxage+1, nyears, nareas)

• Length: Length-at-age for each simulation, age, and year

• Weight: Weight-at-age for each simulation, age, and year

• Select: Selectivity-at-age for each simulation, age, and year

• Retention: Retention-at-age for each simulation, age, and year

• Maturity: Maturity-at-age for each simulation, age, and year

• N.Mortality: Natural mortality-at-age for each simulation, age, and year

• Z.Mortality: Total mortality-at-age for each simulation, age, year and area

• F.Mortality: Fishing mortality-at-age for each simulation, age, year and area

• Fret.Mortality: Fishing mortality-at-age for retained fish for each simulation, age, year and area

• Number: Total numbers by simulation, age, year and area

• Biomass: Total biomass by simulation, age, year and area

• VBiomass: Vulnerable biomass by simulation, age, year and area

• SBiomass: Spawning biomass by simulation, age, year and area

• Removals: Removals (biomass) by simulation, age, year and area

• Landings: Landings (biomass) by simulation, age, year and area

• Discards: Discards (biomass) by simulation, age, year and area

TSdata

A named list with population and fleet dynamics:

• Number: Total numbers; array dimensions c(nsim, nyears, nareas)

• Biomass: Total biomass; array dimensions c(nsim, nyears, nareas)

• VBiomass: Vulnerable biomass; array dimensions c(nsim, nyears, nareas)

• SBiomass: Spawning Biomass; array dimensions c(nsim, nyears, nareas)

• Removals: Removals (biomass); array dimensions c(nsim, nyears, nareas)

• Landings: Landings (biomass); array dimensions c(nsim, nyears, nareas)

• Discards: Discards (biomass); array dimensions c(nsim, nyears, nareas)

• Find: Historical fishing mortality (scale-free); matrix dimensions c(nsim, nyears)

• RecDev: Recruitment deviations (historical and projection); matrix dimensions c(nsim, nyears+proyears+maxage)

• SPR: Named list with Equilibrium and Dynamic SPR (both matrices iwth dimensions c(nsim, nyears))

• Unfished_Equilibrium: A named list with unfished equilibrium numbers and biomass-at-age

Ref

A named list with biological reference points:

• ByYear: A named list with asymptotic reference points (i.e., calculated annually without recruitment deviations) all matrices with dimensions nsim by nyears+proyears:

  • N0: Asymptotic unfished total number

  • SN0: Asymptotic unfished spawning number

  • B0: Asymptotic unfished total biomass

  • SSB0: Asymptotic unfished spawning biomass

  • VB0: Asymptotic unfished vulnerable biomass

  • MSY: Asymptotic MSY

  • FMSY: Fishing mortality corresponding with asymptotic MSY

  • SSBMSY: Spawning stock biomass corresponding with asymptotic MSY

  • BMSY: total biomass corresponding with asymptotic MSY

  • VBMSY: Vulnerable biomass corresponding with asymptotic MSY

  • F01: Fishing mortality where the change in yield per recruit is 10% of that at F = 0

  • Fmax: Fishing mortality that maximizes yield per recruit

  • F_SPR: Fishing mortality corresponding to spawning potential ratio of 20 - 60% in increments of 5%; array dimensions c(nsim, 9, nyears+proyears)

  • Fcrash: Fishing mortality corresponding to the recruits-per-spawner at the origin of the stock-recruit relationship

  • Fmed: Fishing mortality corresponding to the median recruits-per-spawner in the historical period

  • SPRcrash: SPR corresponding to the recruits-per-spawner at the origin of the stock-recruit relationship

• Dynamic_Unfished: A named list with dynamic unfished reference points for each simulation and year:

  • N0: Unfished total numbers

  • B0: Unfished total biomass

  • SN0: Unfished spawning numbers

  • SSB0: Unfished spawning biomass

  • VB0: Unfished vulnerable biomass

  • Rec: Unfished recruitment

• ReferencePoints: A data.frame with nsim rows with with biological reference points calculated as an average over age-of-maturity ageM years around the current year (i.e. nyears):

  • N0: Average unfished numbers

  • B0: Average unfished biomass

  • SSB0: Average unfished spawning biomass (used to calculate depletion)

  • SSN0: Average unfished spawning numbers

  • VB0: Average unfished vulnerable biomass (used to calculate depletion if cpar$control$D='VB')

  • MSY: Average maximum sustainable yield (equilibrium)

  • FMSY: Average fishing mortality corresponding with MSY

  • SSBMSY: Average spawning stock biomass corresponding with MSY

  • BMSY: Average total biomass corresponding with MSY

  • VBMSY: Average vulnerable biomass corresponding with MSY

  • UMSY: Average exploitation rate corresponding with MSY

  • FMSY_M: Average FMSY/M ratio

  • SSBMSY_SSB0: Average ratio of SSBMSY to SSB0

  • BMSY_B0: Average ratio of BMSY to B0

  • VBMSY_VB0: Average ratio of VBMSY to VB0

  • RefY: Maximum yield obtained in forward projections with a fixed F

SampPars

A named list with all sampled Stock, Fleet, Obs, and Imp parameters

OM

The OM object (without cpars)

Misc

A list for additional information

Author(s)

A. Hordyk

Blue-Matter/MSEtool documentation built on Nov. 22, 2024, 8:23 p.m.