Generalized Linear Mixed Models using Template Model Builder
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Documentation for package ‘glmmTMB’ version 1.1.9
Help Pages
| Anova.glmmTMB | Downstream methods |
| as.data.frame.ranef.glmmTMB | Extract Random Effects |
| betabinomial | Family functions for glmmTMB |
| beta_family | Family functions for glmmTMB |
| checkDepPackageVersion | Check for version mismatch in dependent binary packages |
| coef.glmmTMB | Extract Random Effects |
| compois | Family functions for glmmTMB |
| confint.glmmTMB | Calculate confidence intervals |
| confint.profile.glmmTMB | Compute likelihood profiles for a fitted model |
| deviance.glmmTMB | Compute residuals for a glmmTMB object |
| diagnose | diagnose model problems |
| downstream_methods | Downstream methods |
| dtruncated_nbinom1 | truncated distributions |
| dtruncated_nbinom2 | truncated distributions |
| dtruncated_poisson | truncated distributions |
| Effect.glmmTMB | Downstream methods |
| emmeans.glmmTMB | Downstream methods |
| epil2 | Seizure Counts for Epileptics - Extended |
| expandGrpVar | apply |
| family_glmmTMB | Family functions for glmmTMB |
| family_params | Retrieve family-specific parameters |
| finalizeTMB | Optimize TMB models and package results, modularly |
| findReTrmClasses | list of specials - taken from enum.R |
| fitTMB | Optimize TMB models and package results, modularly |
| fixef | Extract fixed-effects estimates |
| fixef.glmmTMB | Extract fixed-effects estimates |
| formatVC | Format the 'VarCorr' Matrix of Random Effects |
| formula.glmmTMB | Extract the formula of a glmmTMB object |
| genpois | Family functions for glmmTMB |
| getCapabilities | List model options that glmmTMB knows about |
| getME | Extract or Get Generalize Components from a Fitted Mixed Effects Model |
| getME.glmmTMB | Extract or Get Generalize Components from a Fitted Mixed Effects Model |
| getReStruc | Calculate random effect structure Calculates number of random effects, number of parameters, block size and number of blocks. Mostly for internal use. |
| getXReTrms | Create X and random effect terms from formula |
| get_cor | translate vector of correlation parameters to correlation values |
| glmmTMB | Fit Models with TMB |
| glmmTMBControl | Control parameters for glmmTMB optimization |
| gt_load | conditionally update glmmTMB object fitted with an old TMB version |
| isLMM.glmmTMB | support methods for parametric bootstrapping |
| lognormal | Family functions for glmmTMB |
| model.matrix.glmmTMB | Methods for extracting developer-level information from 'glmmTMB' models |
| nbinom1 | Family functions for glmmTMB |
| nbinom2 | Family functions for glmmTMB |
| numFactor | Factor with numeric interpretable levels. |
| omp_check | Check OpenMP status |
| ordbeta | Family functions for glmmTMB |
| OwlModel | Begging by Owl Nestlings |
| OwlModel_nb1_bs | Begging by Owl Nestlings |
| OwlModel_nb1_bs_mcmc | Begging by Owl Nestlings |
| Owls | Begging by Owl Nestlings |
| parseNumLevels | Factor with numeric interpretable levels. |
| predict.glmmTMB | prediction |
| print.VarCorr.glmmTMB | Printing The Variance and Correlation Parameters of a 'glmmTMB' |
| priors | use of priors in glmmTMB |
| profile.glmmTMB | Compute likelihood profiles for a fitted model |
| put_cor | translate vector of correlation parameters to correlation values |
| ranef | Extract Random Effects |
| ranef.glmmTMB | Extract Random Effects |
| refit.glmmTMB | support methods for parametric bootstrapping |
| reinstalling | Reinstalling binary dependencies |
| residuals.glmmTMB | Compute residuals for a glmmTMB object |
| RHSForm | extract right-hand side of a formula |
| Salamanders | Repeated counts of salamanders in streams |
| sigma | Extract residual standard deviation or dispersion parameter |
| sigma.glmmTMB | Extract residual standard deviation or dispersion parameter |
| simulate.glmmTMB | Simulate from a glmmTMB fitted model |
| simulate_new | Simulate from covariate/metadata in the absence of a real data set (EXPERIMENTAL) |
| terms.glmmTMB | Methods for extracting developer-level information from 'glmmTMB' models |
| truncated_compois | Family functions for glmmTMB |
| truncated_genpois | Family functions for glmmTMB |
| truncated_nbinom1 | Family functions for glmmTMB |
| truncated_nbinom2 | Family functions for glmmTMB |
| truncated_poisson | Family functions for glmmTMB |
| tweedie | Family functions for glmmTMB |
| t_family | Family functions for glmmTMB |
| up2date | conditionally update glmmTMB object fitted with an old TMB version |
| vcov.glmmTMB | Calculate Variance-Covariance Matrix for a Fitted glmmTMB model |
| weights.glmmTMB | Extract weights from a glmmTMB object |
| ziGamma | Family functions for glmmTMB |