├── .Rbuildignore ├── .Rproj.user ├── 8DF0E4A5 │ ├── console06 │ │ └── INDEX001 │ ├── cpp-definition-cache │ ├── pcs │ │ ├── debug-breakpoints.pper │ │ ├── files-pane.pper │ │ ├── source-pane.pper │ │ ├── windowlayoutstate.pper │ │ └── workbench-pane.pper │ ├── persistent-state │ ├── rmd-outputs │ ├── saved_source_markers │ └── sources │ │ └── prop │ │ ├── 1594123C │ │ ├── 1A09EDA5 │ │ ├── 38E4D5F6 │ │ ├── 43C8ED02 │ │ ├── 4F591243 │ │ ├── 568D9613 │ │ ├── 60C1863A │ │ ├── 6BF74E5 │ │ ├── 71D9E738 │ │ ├── 86B75338 │ │ ├── AA2EDCE8 │ │ ├── AC39CD4C │ │ ├── BBC4B64D │ │ ├── C49B0AC9 │ │ ├── C727A67B │ │ ├── CD847EFD │ │ ├── D88EED64 │ │ ├── D9057E36 │ │ ├── E4F7E05F │ │ ├── E8F4A78 │ │ ├── ED7415E8 │ │ ├── EDF96B9 │ │ ├── EF30A9CC │ │ ├── F4A349E1 │ │ ├── F8113705 │ │ ├── FDC7FC68 │ │ └── INDEX └── shared │ └── notebooks │ ├── patch-chunk-names │ └── paths ├── .gitattributes ├── .github └── workflows │ └── R-CMD-check.yml ├── .gitignore ├── DESCRIPTION ├── NAMESPACE ├── NEWS.md ├── R ├── Fit_Funs.R ├── Functions.R ├── methods.R ├── mixed_fit.R └── mixed_model.R ├── README.md ├── _pkgdown.yml ├── docs ├── 404.html ├── apple-touch-icon-120x120.png ├── apple-touch-icon-152x152.png ├── apple-touch-icon-180x180.png ├── apple-touch-icon-60x60.png ├── apple-touch-icon-76x76.png ├── apple-touch-icon.png ├── articles │ ├── Custom_Models.html │ ├── Custom_Models_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── figure-html │ │ │ ├── unnamed-chunk-13-1.png │ │ │ └── unnamed-chunk-13-2.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Dynamic_Predictions.html │ ├── Dynamic_Predictions_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── figure-html │ │ │ ├── dyn_preds_fig-1.png │ │ │ ├── dyn_preds_fig_PI-1.png │ │ │ ├── fig_scr_rules-1.png │ │ │ └── fig_scr_rules2-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── GLMMadaptive.html │ ├── GLMMadaptive_basics.html │ ├── GLMMadaptive_basics_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── GLMMadaptive_files │ │ ├── figure-html │ │ │ ├── unnamed-chunk-19-1.png │ │ │ ├── unnamed-chunk-19-2.png │ │ │ ├── unnamed-chunk-20-1.png │ │ │ ├── unnamed-chunk-21-1.png │ │ │ └── unnamed-chunk-22-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Goodness_of_Fit.html │ ├── Goodness_of_Fit_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── figure-html │ │ │ ├── poisson_mixed_model_GoF-1.png │ │ │ ├── zi_NB_mixed_model_GoF-1.png │ │ │ ├── zi_poisson_mixed_model2_GoF-1.png │ │ │ └── zi_poisson_mixed_model_GoF-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Methods.html │ ├── Methods_MixMod.html │ ├── Methods_MixMod_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── figure-html │ │ │ ├── unnamed-chunk-19-1.png │ │ │ ├── unnamed-chunk-19-2.png │ │ │ ├── unnamed-chunk-20-1.png │ │ │ ├── unnamed-chunk-21-1.png │ │ │ └── unnamed-chunk-22-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Methods_files │ │ ├── figure-html │ │ │ ├── unnamed-chunk-19-1.png │ │ │ ├── unnamed-chunk-19-2.png │ │ │ ├── unnamed-chunk-20-1.png │ │ │ ├── unnamed-chunk-21-1.png │ │ │ └── unnamed-chunk-22-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Multiple_Comparisons.html │ ├── Multiple_Comparisons_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Optimization.html │ ├── Optimization_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── Ordinal_Mixed_Models.html │ ├── Ordinal_Mixed_Models_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── figure-html │ │ │ ├── CR_probs_plot-1.png │ │ │ ├── CR_probs_plot_marg-1.png │ │ │ └── CR_probs_plot_marg2-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ ├── ZeroInflated_and_TwoPart_Models.html │ ├── ZeroInflated_and_TwoPart_Models_files │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── figure-html │ │ │ ├── unnamed-chunk-11-1.png │ │ │ └── unnamed-chunk-12-1.png │ │ └── header-attrs-2.6 │ │ │ └── header-attrs.js │ └── index.html ├── authors.html ├── bootstrap-toc.css ├── bootstrap-toc.js ├── docsearch.css ├── docsearch.js ├── favicon-16x16.png ├── favicon-32x32.png ├── favicon.ico ├── index.html ├── link.svg ├── logo.png ├── news │ └── index.html ├── pkgdown.css ├── pkgdown.js ├── pkgdown.yml ├── reference │ ├── GLMMadaptive.html │ ├── Rplot001.png │ ├── Rplot002.png │ ├── Rplot003.png │ ├── Rplot004.png │ ├── continuation_ratio.html │ ├── effectPlotData-1.png │ ├── effectPlotData-2.png │ ├── effectPlotData-3.png │ ├── effectPlotData-4.png │ ├── effectPlotData.html │ ├── extra_fams.html │ ├── figures │ │ └── logo.png │ ├── index.html │ ├── marginal_coefs.html │ ├── methods.html │ ├── mixed_model-1.png │ ├── mixed_model-2.png │ ├── mixed_model-3.png │ ├── mixed_model.html │ ├── negative_binomial.html │ └── scoring_rules.html └── sitemap.xml ├── man ├── GLMMadaptive.Rd ├── continuation_ratio.Rd ├── effectPlotData.Rd ├── extra_fams.Rd ├── figures │ └── logo.png ├── marginal_coefs.Rd ├── methods.Rd ├── mixed_model.Rd ├── negative_binomial.Rd └── scoring_rules.Rd ├── pkgdown └── favicon │ ├── apple-touch-icon-120x120.png │ ├── apple-touch-icon-152x152.png │ ├── apple-touch-icon-180x180.png │ ├── apple-touch-icon-60x60.png │ ├── apple-touch-icon-76x76.png │ ├── apple-touch-icon.png │ ├── favicon-16x16.png │ ├── favicon-32x32.png │ └── favicon.ico └── vignettes ├── Custom_Models.Rmd ├── Dynamic_Predictions.Rmd ├── GLMMadaptive.Rmd ├── Goodness_of_Fit.Rmd ├── Methods.Rmd ├── Multiple_Comparisons.Rmd ├── Optimization.Rmd ├── Ordinal_Mixed_Models.Rmd └── ZeroInflated_and_TwoPart_Models.Rmd /.Rbuildignore: 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