Man pages for flr/FLa4a
A Simple and Robust Statistical Catch at Age Model
| a4aFitCatchDiagn-class | S4 class 'a4aFitCatchDiagn' |
| a4aFit-class | S4 class 'a4aFit' |
| a4aFitMCMC-class | S4 class 'a4aFitMCMC' |
| a4aFitResiduals-class | S4 class 'a4aFitResiduals' |
| a4aFitSA-class | S4 class 'a4aFitSA' |
| a4aGr-class | Individual growth class |
| a4aInternal | Stock assessment model advanced method |
| a4aM-class | Natural mortality class |
| a4aStkParams-class | Stock parameters class |
| addition-methods | + methods |
| assorted-methods | Assorted methods needed by FLa4a |
| breakpts | Breakpoints |
| bubbles-methods | Bubbles plot of standardized log residuals |
| coef-methods | coefficients extract and replacement |
| collapseSeasons | Collapse seasons |
| defaultsubmodels | Default sub-models |
| deprecated | deprecated |
| dps567 | dps567 |
| dps567.idx | dps567.idx |
| genFLIndex-methods | Methods to generate FLIndex objects |
| genFLQuant-methods | Methods to generate FLQuant objects |
| genFLStock-methods | Methods to generate FLStock objects |
| getAcor-methods | compute log-correlation matrix |
| getADMBHessian | Get ADMB Hessian |
| getCov-methods | Get covariance matrix |
| getK | Get K |
| getTPL | Get TPL with ADMB code |
| getX-methods | Get model matrix |
| hakeGSA7 | hakeGSA7 |
| hakeGSA7.idx | hakeGSA7.idx |
| hke1567 | hke1567 |
| hke1567.idx | hke1567.idx |
| index_cd_len | index_cd_len |
| index_pt_len | index_pt_len |
| index_sp_len | index_sp_len |
| l2a | Method to convert length-based data to age-based |
| m | natural mortality |
| ma-methods | Model averaging (experimental) |
| multiplication-methods | * methods |
| mut09 | mut09 |
| mut09.idx | mut09.idx |
| mvnorm-a4aM | natural mortality |
| mvrcop | Simulation using copula models |
| mvrcop-a4aGr | mvrcop |
| mvrnorm-a4aGr | mvrnorm |
| mvrtriangle | Simulation with a copula model and triangular distributions |
| mvrtriangle-a4aGr | mvrtriangle |
| pars2dim-methods | Check that the second dimension in params is "iter" |
| plotc | plot for fitted catch-at-age |
| plot-catch | Plot of aggregated catch standardized log residuals |
| ploti | Plot for fitted indices-at-age |
| plot-mfits | Plot of metrics of multiple fits |
| plot-mmcfits | Plot of metrics of multiple fits |
| plot-res | Plot of standardized log residuals |
| predict-a4aGr | predict for 'a4aGr' |
| predict-methods | Predict methods for SCA |
| qqmath-methods | qqplot of standardized log residuals |
| range-a4aM | range for a4aM objects |
| rfLen | redfish length data |
| rfLen.stk | rfLen.stk |
| rfTrawl.idx | rfTrawl.idx |
| rfTrawlJmp.idx | rfTrawlJmp.idx |
| rfTrawlTrd.idx | rfTrawlTrd.idx |
| sca | Statistical catch-at-age method |
| SCAMCMC-class | MCMC settings class |
| SCAPars-class | Model parameters class |
| sca.sa | Call sca inside the mp function |
| scax | Run several stock assessments in a single run |
| sep.sa | Call a separable SA inside the mp function |
| shake_len | shake_len |
| simulate-methods | Simulation methods for SCA |
| southernHakeLen | Southern hake length data |
| stdlogres-methods | Standardized log residuals |
| submodel-class | Submodel class |
| submodels-class | Submodels class |
| vcov-methods | Variance-covariance matrix |
| wireframe | wireframe plot for FLQuant |
