Man pages for flr/FLCore
Core Package of FLR, Fisheries Modelling in R
| acc | Catch curve estimates of total mortality at age (Z) |
| accessors | accessor and replacement methods for FLCore classes |
| adjust-FLStock-method | Recalculate to adjust abundances to F and M |
| ageopt | Age at which a cohort reaches its maximum biomass, calculated... |
| AIC | Method AIC |
| append-methods | Append objects along the year dimension |
| apply-methods | apply method for FLCore classes |
| ar1rlnorm | Generates a time series of possible bias-corrected lognormal... |
| Arith-methods | Arithmetic operators for FLCore classes |
| as.FLSRs | Convert an FLStock into a list of one or FLSR objects. |
| bias | Bias of estimates through jackknife |
| BIC | Method BIC Bayesian information criterion (BIC) method |
| bubbles | Method Bubbles plot |
| catchMature | Proportion of mature and inmature fish in the catch |
| catch.n-FLQuant-method | catch.n calculation method |
| coerce-methods | Convert Objects Between Classes |
| compare-methods | A method for comparing FLR objects |
| compute | Methods to compute quantities |
| computeHarvest-FLStock-missing-method | Computes fishing mortality from abundances, catches and... |
| cpue | cpue, a method to generate an observation of a CPUE index of... |
| createFLAccesors | Create accesor methods for a given class |
| datasets | FLCore datasets |
| dbind-methods | Methods for binding objects of array classes along a given... |
| dims | Method dims |
| dimSummaries | Summaries by dimension |
| discardsRatio | Compute the ratio of discards to total catch in numbers or... |
| drop-methods | drop method for FLCore array-based classes |
| evalPredictModel | Evaluates a predictModel slot inside the object cointaining... |
| exp-methods | exp and log methods FLCore array-based classes |
| Extract | Extract |
| ffwd | Project forward an FLStock for a fbar target |
| FLArray | Class FLArray |
| FLBiol | Class FLBiol |
| FLBiols | Class FLBiols |
| FLCohort | Class FLCohort |
| FLCohorts | Class FLCohorts |
| FLComp | Class FLComp |
| FLComps | Class FLComps |
| FLI | Class FLI |
| FLIndex | Class FLIndex |
| FLIndexBiomass | Class FLIndexBiomass |
| FLIndices | Class FLIndices |
| FLlst | Class FLlst |
| FLModel | Class FLModel |
| FLModelSim | Class FLModelSim |
| FLModelSims | Class FLModelSims |
| FLPar | Class FLPar |
| FLParJK | Class FLParJK |
| FLPars | Class FLPars |
| FLQuant | FLQuant class for numerical data |
| FLQuantDistr | A class for samples of a probability distribution |
| FLQuantJK | A class for jackknifing fisheries data |
| FLQuantPoint | Class FLQuantPoint |
| FLQuants | Class FLQuants |
| FLS | Class FLS |
| FLSR | Class FLSR |
| FLSRs | 'FLSRS' is a class that extends 'list' through 'FLlst' but... |
| FLStock | Class FLStock |
| FLStockLen | Class FLStockLen |
| FLStocks | Class FLStocks |
| FUNCTION | Extract and modify the recruitment time series |
| Funwanted | Calculate the discards and landings-associated fishing... |
| fwdWindow | Extend a FLR object along the year dimension and set future... |
| getSlotNamesClass | Names of slots of a given class |
| group | Group objects over some index by applying a function over a... |
| growth-models | Growth models |
| iav | Compute the inter-annual variability of a time series |
| intersect | Returns FLR objects trimmed to their shared dimensions. |
| iter | Methods iter |
| jackknife | Method jackknife |
| join | Joins objects along a dimensions where dimnames differ |
| lattice | Lattice methods |
| length-based-indicators | Calculate quantile(s) of length distribution |
| mase | Compute mean absolute scaled error (MASE) |
| mbar | Computes the mean natural mortality acros the fully selected... |
| meanage | Calculate the mean age in the stock and catch |
| meanwt | Calculate the mean weight in stock and catch |
| metrics | Extract simply-defined metrics from compex objects |
| mohnMatrix | Generate a matrix to compute Mohn's rho for a single metric |
| msy-methods | msy: A series of methods to extract or compute MSY-based... |
| names | Method names |
| operators | FLQuant arithmetic operators that extend objects |
| plot | Method plot |
| predictModel | A class for model prediction |
| production | Returns the computed yearly production |
| propagate | Method propagate |
| properties | Returns a series of properties of the fisheries element... |
| quant | Method quant |
| quantTotals | Methods quantTotals |
| readVPAIntercatch | Reads a single file with one year of data in VPA format as... |
| residuals-FLQuant | residuals |
| rnoise | Random noise with different frequencies |
| roc | Receiver Operating Characteristic (ROC) |
| ruleset | Set of verify rules for an FLR class |
| runstest | Computes Runs Test p-values |
| rwalk | Generate a random walk time series from a starting point |
| show | Method show |
| simplify | Aggregate or select along unwanted dimensions |
| slim | Drop unnecesary 'iters' |
| split | splits _x_ along the _iter_ dimension into the groups defined... |
| splom | Method splom |
| spread | A function to make available list elements inside a function... |
| SRModels | Stock-Recruitment models |
| ssb | Calculate or return the Spawning Stock Biomass |
| ssb_next | Calculate next yera's SSB from survivors and Fbar |
| standardUnits-methods | Standard units of measurement for a complex class object |
| summary-methods | Method summary |
| survey | A method to generate observations of abundance at age. |
| survivors | Calculate the survivors of a stock to the next year. |
| sweep-methods | Method sweep for FLCore classes |
| tail | Returns the first and last parts of an FLQuant. |
| trim | Method trim |
| units-FLCore | Method units |
| uom | uom Units of Measurement |
| uomTable | Table for conversions and operations between units of... |
| upperlower-methods | Extract and modify the _lower_ and _upper_ FLModel attibutes. |
| verify | Verify FLR objects |
| weighted.mean-FLQuants-FLQuants-method | Weighted means along a FLQuants. |
| wireframe | Method wireframe |
| yearSample | Samples along the year dimension |
| z-methods | Total mortality z |
