HistMICE: Reconstruct historical dynamics

In tcarruth/MSEtool: Management Strategy Evaluation Toolkit

Description

Function that reconstructs historical stock trends from fitted qs and all other parameters including MICE components

Usage

HistMICE(
  x,
  StockPars,
  FleetPars,
  np,
  nf,
  nareas,
  maxage,
  nyears,
  N,
  VF,
  FretA,
  maxF = 0.9,
  MPA,
  Rel,
  SexPars,
  qs,
  qfrac
)

Arguments

x	Integer, the simulation number
StockPars	A list of sampled stock parameters, one list element per stock
FleetPars	A hierarcical list of sampled fleet parameters, first list level is stock, second is fleet
np	The number of stocks
nf	The number of fleets
nareas	The number of areas
maxage	The maximum number of modelled ages
nyears	The number of historical 'spool-up' years (from unfished to now)
N	An array of stock numbers [nsim,np,maxage,nyears,nareas] - only the values from the first year are used
VF	An array of vulnerability [nsim,np,nf,maxage,nyears+proyears]
FretA	An array of retention [nsim,np,nf,maxage,nyears+proyears]
maxF	A numeric value specifying the maximum fishing mortality for any single age class
MPA	An of spatial closures by year [np,nf,nyears+proyears,nareas]
Rel	A list of inter-stock relationships see slot Rel of MOM object class
SexPars	A list of sex-specific relationships (SSBfrom, stock_age)
CatchFrac	A list of stock-specific fleet fractions of current catch list[[stock]][nsim, nf]
bounds	Bounds for total q estimation

Author(s)

T.Carruthers

tcarruth/MSEtool documentation built on Oct. 19, 2020, 6:09 a.m.