Hist-class: Class "Hist"

In zanbi/DLMtool: Data-Limited Methods Toolkit

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

Obs

A table of sampled parameters of the observation model. Table of nsim rows. Real numbers

• Abias: bias in observed current absolute stock biomass

• Aerr: error in observed current absolute stock biomass

• betas: hyper-stability/hyper-depletion parameter

• BMSY_B0bias: bias in ratio of most productive stock size relative to unfished

• Brefbias: bias in BMSY stock levels (target or reference biomass levels)

• CAA_ESS: the effective sample size of multinomial catch-at-age observation model (number of independent draws)

• CAA_nsamp: the number of catch-at-age observations per time step

• CAL_ESS: the effective sample size of multinomial catch-at-length observation model (number of independent draws)

• CAL_nsamp: the number of catch-at-length observations per time step

• Cbias: bias in observed catches

• Crefbias: bias in MSY prediction (target or reference catch)

• Csd: observation error in observed catches (lognormal CV)

• Dbias: bias in observed stock depletion (also applies to depletion Dt for DCAC)

• Derr: error in observed stock depletion

• FMSY_Mbias: bias in ratio of FMSY to natural mortality rate

• hbias: bias in observed steepness of the stock recruitment relationship

• Irefbias: bias in abundance index corresponding to BMSY stock levels

• Isd: observation error in relative abundance index (lognormal CV)

• Kbias: bias in maximum growth rate (von Bertalanffy K parameter)

• lenMbias: bias in length at 50 per cent maturity

• LFCbias: bias in length at first capture

• LFSbias: bias in length at full selection

• Linfbias: bias in maximum length (von Bertalanffy Linf parameter)

• Mbias: bias in observed natural mortality rate

• Recsd: error in observed recruitment

• t0bias: bias in theoretical length at age zero (von Bertalanffy t0 parameter)

OM

A numeric data.frame with nsim rows with sampled Stock & Fleet parameters

AtAge

A named list with arrays (dim nsim, maxage, nyears+proyears):

• 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

• Nage: Total numbers by simulation, age, and year

• SSBage: Spawning stock biomass by simulation, age, and year

• FM: Fishing mortality by simulation, age, year, and area

TSdata

A named list with population dynamics by simulation and year :

• VB: Vulnerable biomass

• SSB: Spawning stock biomass

• B: Total biomass

• Removals: Removals

• Catch: Retained catch (will be same as removals unless there is discard mortality)

• Rec: Recruitment

• N: Total numbers

• Find: Historical fishing effort

• Marray: Average adult natural mortality (historical & projection)

• RecDev: Recruitment deviations (historical & projection)

Ref

A numeric data.frame with nsim rows containing biological reference points:

• B0: Average unfished total biomass

• Blow: Spawning stock biomass where it takes MGThorizon x MGT to reach Bfrac of BMSY

• BMSY: Average total biomass corresponding with MSY

• BMSY_B0: Ratio of BMSY to B0

• FMSY: Fishing mortality rate corresponding with MSY

• FMSY_M: Ratio of FMSY to (adult) M

• MGT: Mean generation time

• MSY: Maximum sustainable yield

• N0: Average unfished numbers

• R0: Average unfished recruitment

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

• SSB0: Average unfished spawning biomass

• SSBMSY: Average spawning biomass corresponding with MSY

• SSBMSY_SSB: Ratio of SSBMSY to SSB0

• UMSY: Exploitation rate corresponding with MSY

• VBMSY: Average vulnerable biomass corresponding with MSY

SampPars

All sampled Stock, Fleet, Obs, and Imp parameters

Misc

A list of additional information

Author(s)

A. Hordyk

zanbi/DLMtool documentation built on April 12, 2020, 12:24 a.m.