| abi | Calculate P obs for a FLStock object. |
| abiAge | Calculate the reference age for a FLBRP object. |
| abiMsy | Calculate P(N) at FMSY for a FLBRP object. |
| allcatch | allcatch() |
| amat | amat: age at a specific maturity |
| aopt | aopt() |
| asa | ASA: the Average Age of Spawners |
| awa | Age based indicators |
| benchmark | Calculate something using the haupt method for FLQuant and... |
| benchmarksFn | Internal Function for Benchmark Extraction |
| blim | Calculate Blim Reference Point |
| blim-FLBRP-method | Calculate Biomass Limit Reference Points |
| calcPriors | Calculate priors for an 'FLBRP' based on reference points and... |
| curveSS-list-method | Extracts yield and surplus production from Stock Synthesis... |
| diagnostics | Comprehensive Diagnostic Evaluation |
| ebiomass | Calculate Exploitable Biomass |
| eql | Equilibrium Model Fitting |
| eqsim | eqsim |
| eqsimFn | Internal Function for EqSim Reference Point Extraction |
| fabs | Compute instantaneous F, such that F_a = Fabs*Sa |
| fishlife | Extract FishLife Parameters |
| fishlifesFn | Internal Function for FishLife Parameter Extraction |
| fitselex | fits selex selectivity function to F_at_age from FLStock |
| fjuv | Fjuv |
| FLifePar | Internal Function for FishLife Parameter Extraction |
| FLifeParFn | Internal Function for FLife Parameter Extraction |
| from_logits | from_logits() |
| ftmb | Fits Stock Recruitment Relationships (SRR) in TBM |
| globalMsy | hcrICES |
| growth-models | Growth models |
| haupt | Calculate total mortality-at-age (Z) using length data. |
| haupt-data.frame-numeric-method | Calculate something using the haupt method for data.frame and... |
| hauptFn | Internal function for performing the haupt calculation. |
| haupt-numeric-numeric-method | Calculate something using the haupt method for numeric... |
| ind | Calculate Fishery Indicators |
| invALK-FLQuant-missing-missing-method | Inverse Age-Length Key |
| kobe | Extracts Kobe Indicators (SSB/BMSY and F/FMSY) |
| leslie | Leslie Matrix Population Model |
| lhEql | Derives an 'FLBRP' from life history parameters |
| matSel | Calculate metrics comparing maturity and selectivity patterns |
| metrics | properties |
| msyVirgin | Calculate MSY and Virgin State Metrics |
| msyVirgin-FLBRP-method | Calculate Virgin and MSY Reference Points from Production... |
| osr | Operational Sex Ratio (OSR) |
| p2shape | Calculate Reference Points from Pella-Tomlinson Model... |
| pellaTparams | Calculate Pella-Thompson Production Model Parameters |
| plotLengths | Length distributions |
| plotselage | plots mean selectivity at age Sa across selected years |
| plotselex | plots mean selectivity at age Sa across selected years |
| PN | Confusion Matrix Statistics |
| pos | POS: proportion of the SSB made up of older individuals. |
| priors | priors |
| priors-FLBRP-method | calculates priors for biomass dynamic models |
| processError | Calculate Process Error for FLBRP Object |
| pt | Production Type Method for Surplus Production Models |
| rebuild | Get priors for biomass dynamic assessment from an 'FLBRP'... |
| rebuildTime | Calculate rebuilding time |
| rebuildTime-FLStock-method | Calculate rebuilding time |
| roc2 | Calculate ROC (Receiver Operating Characteristic) statistics... |
| rocFn | ROC Curve Coordinates |
| seasonalise | Adds ICES PA & MSY reference points to refpts and fits a SRR |
| selage | coverts harvest() and catch.sel() selectivity at age Sa |
| selex | computes selex curves |
| selexpars | computes initial values for selex pars |
| skillScore | Calculate Prediction Skill Scores |
| skillSummary | Stock Assessment Model Summary |
| spawnOnce | spawnOnce |
| srlen | Example |
| ssb2 | ssb2 |
| ssb.age | ssb.age |
| state | Stock Status Classification Metrics |
| stdz | Standardize Values |
| theme_base | Custom Minimal Theme for ggplot2 |
| theme_beamer | Theme for Beamer Presentations |
| title | sshat |
| to_logits | to_logits() |
| trend | Trend Agreement Metrics |
| tryIt | Safely Evaluate an Expression |
| tseries | Extract Time Series Statistics from FLStock Objects |
| TSS | Calculate True Skill Statistic (TSS) |
| variability | Variability Comparison Metrics |
| varselex | function to dynamically vary selex parameters |
| wmat | wmat |
