All functions

FLBDsim

FLBDsim class and methods

FLBEIA()

Run the FLBEIA bio-economic simulation model

FLCatchExt(<FLQuant>) FLCatchExt(<missing>) `[`(<FLCatchExt>,<ANY>,<ANY>,<ANY>) `[<-`(<FLCatchExt>,<ANY>,<ANY>,<FLCatchExt>) `catchNames<-`() addFLCatch(<FLCatchExt>,<FLCatchExt>) catchNames(<FLCatchExt>)

FLCatchExt class and the methods to construct it.

vFLCs() FLCatchesExt(<ANY>) FLCatchesExt(<missing>) FLCatchesExt(<list>) is.FLCatchesExt() catchNames(<FLCatchesExt>) catchNames(<FLMetierExt>) catchNames(<FLMetiersExt>) catchNames(<FLFleetExt>) catchNames(<FLFleetsExt>)

Class FLCatchesExt

FLFleetExt(<FLMetiersExt>) FLFleetExt(<FLMetierExt>) FLFleetExt(<FLCatchesExt>) FLFleetExt(<FLCatchExt>) FLFleetExt(<FLFleetExt>) FLFleetExt(<missing>) `[`(<FLFleetExt>,<ANY>,<missing>,<ANY>) `[`(<FLFleetExt>,<ANY>,<ANY>,<ANY>) `[[`(<FLFleetExt>,<ANY>,<missing>)

FLFleetExt class and the methods to construct it.

vFLFs() FLFleetsExt(<ANY>) FLFleetsExt(<missing>) FLFleetsExt(<list>) is.FLFleetsExt()

Class FLFleetsExt

FLMetierExt(<FLCatchExt>) FLMetierExt(<FLCatchesExt>) FLMetierExt(<FLQuant>) FLMetierExt(<missing>) `[`(<FLMetierExt>,<ANY>,<missing>,<ANY>) `[[`(<FLMetierExt>,<ANY>,<missing>)

FLMetierExt class and the methods to construct it.

vFLMs() FLMetiersExt(<ANY>) FLMetiersExt(<missing>) FLMetiersExt(<list>) is.FLMetiersExt()

Class FLMetiersExt

FLSRsim

FLSRsim class and methods

SelAtAge()

Estimate selectivity at age

annualTAC() aneHCRE() F2CatchHCR() FroeseHCR() IcesHCR() neaMAC_ltmp() annexIVHCR() ghlHCR() MAPHCR() CFPMSYHCR() MultiStockHCR() pidHCR() pidHCRItarg() little2011HCR()

Harvest Control Rules (HCRs)

bioSum() bioSumQ() fltSum() fltSumQ() fltStkSum() fltStkSumQ() mtStkSum() mtStkSumQ() mtSum() mtSumQ() advSum() advSumQ() riskSum() npv() npvQ() vesselSum() vesselSumQ() vesselStkSum() vesselStkSumQ()

Summary of the FLBEIA output

biolfleets2flstock()

Function to generate an FLStock from an FLBiol and FLFleet

calculate.q.sel.flrObjs()

Calculates selectivity-related parameters

create.BDs.data()

FLBEIA easy conditioning: BDs argument creator

create.SRs.data()

FLBEIA easy conditioning: SRs argument creator

create.advice.ctrl()

advice.ctrl object creator

create.advice.data()

FLBEIA easy conditioning: advice argument creator

create.assess.ctrl()

assess.ctrl object creator

create.biol.arrays()

Function to generate an FLBiol object given inputs as arrays

create.biols.ctrl()

biols.ctrl object creator

create.biols.data()

FLBEIA easy conditioning: biols argument creator

create.covars.ctrl()

covars.ctrl object creator

create.ecoData()

Function to generate the covar object neccesary to compute economic indicators and fills in economic slots in FLFleets object

create.fleets.arrays()

Function to generate an FLFleetsExt object given inputs as arrays

create.fleets.ctrl()

fleets.ctrl object creator

create.fleets.data()

FLBEIA easy conditioning: fleets argument creator

create.indices.data()

FLBEIA easy conditioning: indices argument creator

create.obs.ctrl()

obs.ctrl object creator

datasets

FLBEIA datasets

joinIter()

Joins the iterations of several FLBEIA outputs

tlandStock() tdiscStock() landStock.f() discStock.f() catchStock.f() landWStock.f() discWStock.f() catchWStock.f() landStock() discStock() catchStock() landWStock() discWStock() catchWStock()

Extract landings, discard or catch at age

plotEco()

Plots with fleets data

plotFLBiols()

Plots with biological data

plotFLFleets()

Plots with fleets data

plotbioSum() plotfltSum()

Summary plots of the FLBEIA output

plotfltStkSum()

Plots with fltStkSum data

revenue_flbeia() costs_flbeia() totvcost_flbeia() totfcost_flbeia() price_flbeia()

Economic summary functions.

setUnitsNA()

Function to remove the units from the FLQuants of FLBiol or FLFleetExt objects

stock.fleetInfo()

stock.fleetInfo

F_flbeia() SSB_flbeia() B_flbeia() R_flbeia() C_flbeia() L_flbeia() D_flbeia() summary_flbeia() ecoSum_damara()

Biological summary functions

unit2age()

Translates unit dimension in an FQuant into age dimension

updateFLBiols()

Update the FLBiols object to the FLCore 2.6

wtadStock()

Mean weight at age in discards for a stock across fleets and metiers

wtalStock()

Mean weight at age in landings for a stock across fleets and metiers

xtabs2()

Cross tabulation