Function reference • FLBEIA

All functions
`FLBDsim` `FLBDsim-class`	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`	FLSRsim class and methods
`SelAtAge()`	Estimate selectivity at age
`annualTAC()` `F2CatchHCR()` `FroeseHCR()` `IcesHCR()` `neaMAC_ltmp()` `aneHCRE()` `annexIVHCR()` `ghlHCR()` `IcesCat3HCR()` `IcesCat3HCR_bsafe_hrcap()` `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
`brpsson()`	Reference points for a seasonal model
`calculate.q.sel.flrObjs()`	Calculates selectivity-related parameters
`checkFLBEIAData()` `checkBiols()` `checkFleets()` `checkSRs()` `checkBDs()` `checkAdvice()` `checkObsctrl()`	Checking inputs of FLBEIA function
`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` `one` `oneIt` `multi` `res_flbeia` `mur` `oneBio` `oneSR` `oneFl` `oneCv` `oneIndAge` `oneIndBio` `oneAdv` `oneMainC` `oneBioC` `oneFlC` `oneCvC` `oneObsC` `oneObsCIndAge` `oneObsCIndBio` `oneAssC` `oneAdvC` `oneItBio` `oneItSR` `oneItFl` `oneItCv` `oneItIndAge` `oneItIndBio` `oneItAdv` `oneItMainC` `oneItBioC` `oneItFlC` `oneItCvC` `oneItObsC` `oneItObsCIndAge` `oneItObsCIndBio` `oneItAssC` `oneItAdvC` `multiBio` `multiSR` `multiBD` `multiFl` `multiCv` `multiAdv` `multiMainC` `multiBioC` `multiFlC` `multiCvC` `multiObsC` `multiAssC` `multiAdvC` `oneRes` `oneItRes` `multiRes` `catch` `evhoe`	FLBEIA datasets
`extractBRP()`	Extracts reference points (specifically Bpa, Blim, Bmsy, Fpa, Flim and Fmsy) from advice.ctrl object, If not available, then values are set to NA.
`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
`plotBRPsson()`	YPR plots for a seasonal model
`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.
`segregmix()`	Stock-Recruitment models in FLBEIA: segrexmix - Mixture of 2 segmented regression stock-recruitment models fit
`setUnitsNA()`	Method setUnitsNA
`stock.fleetInfo()`	stock.fleetInfo
`ecoSum_damara()` `F_flbeia()` `SSB_flbeia()` `B_flbeia()` `R_flbeia()` `C_flbeia()` `L_flbeia()` `D_flbeia()` `summary_flbeia()`	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

Reference

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