| add_cov_association | Describe parameter/covariate associations |
| add_prm_association | Describe parameter associations |
| add_process_preset | Add, apply, list, amend or remove 'xpdb' processing presets |
| add_relationship | Add relationship(s) to an xpose_set |
| add_watermark | Add a watermark to a plot |
| add_xpdb | Add one or more 'xpdb' objects to an 'xpose_set' |
| apply_default_labs | Apply default label overrides to a plot |
| attach_nlmixr2 | Attach nlmixr2 fit object to xpose data object |
| backfill_iofv | Add individual objective function to data |
| backfill_nlmixr2_props | Populate some properties from nlmixr2 fit |
| catdv_vs_dvprobs | Non-simulation based likelihood model diagnostic |
| catdv_vs_ipred | Binned calibration plot for categorical DVs |
| catdv_vs_occ | Longitudinal binned observed vs. predicted plot for... |
| check_levels | Verify validity of level list |
| check_xpose_set | Check an 'xpose_set' object |
| confmatr_by_threshold | Calculate all binary confusion matrix indices |
| convenience | Convenience functions used in package |
| cormat | Parameter correlation/covariance matrix heatmap |
| cov_forest | Covariate effect forest plot |
| derive_prm | Derive full parameter set for mammillary PK model |
| derive_shk | Derive per-individual contribution to eta shrinkage |
| desc_from_comments | Backfill utility for descriptions |
| diagnose_constants | Check for potential parameterization issues |
| diagram_lineage | Visualize 'xpose_set' |
| diff.xpose_set | Display deltaOFV values across 'xpose_set' |
| duplicated.xpose_set | Check if any xpose_data objects are repeated in xpose_set |
| edit_xpose_data | Master xpdb editing function |
| eta_vs_catcov | Eta categorical covariate plots (typical) |
| eta_vs_contcov | Eta continuous covariate plots (typical) |
| expose_param | Expose a model parameter of xpdb objects in an xpose_set |
| expose_property | Expose a property of xpdb objects in an xpose_set |
| fill_prob_subprob_method | Place .problem, .subprob and .method into environment... |
| filter.xpose_set | Filtration method for xpose_set |
| focus_xpdb | Focus on an xpdb object in an xpose_set |
| franken_prop | Combine a property from all components of a 'franken_xpdb' |
| franken_xpdb | Combine several 'xpose_data' objects into one |
| get_cov_matrix | Extract a parameter covariance or correlation matrix |
| get_prm | Access model parameters |
| get_prm_nlmixr2 | get_prm equivalent for nlmixr2 fits |
| get_prop | Generic function to extract a property from a model summary |
| get_set_index | Get full index for xpose_data data |
| get_shk | Get shrinkage estimates from model summary |
| get_xtras_option | Inspect which 'xpose.xtras' option value is dominant |
| ggsave_xp | Save a plot with 'xpose.xtras' default output resolution |
| grab_xpose_plot | Grab processed 'xpose_plot' |
| grapes-p-grapes | Binary check if LHS is parent of RHS |
| grid_plots | Grid plots |
| ind_plots_sample | Individual plots for a (stratified) sample of individuals |
| ind_roc | Individual ROC plots |
| iofv_vs_mod | Objective function changes across models |
| irep | Add simulation counter |
| is_franken_xpdb | Is this a model-averaged/combined ("franken") 'xpose_data'... |
| is_xp_xtras | Basic class checker for 'xp_xtras' |
| join_backfill | Left join, backfilling shared columns instead of duplicating... |
| left_join_x | Backfill missing variables via a left join |
| levelers | Level-defining helper functions |
| list_dv_probs | For a categorical DV variable, show associated probabilities |
| list_vars | Updates to 'list_vars' |
| logLik.xpose_data | Log-likelihood, AIC and BIC for 'xpose_data' objects |
| modavg_plots | Model average plots |
| modavg_xpdb | Create a model-averaged xpose data object |
| modify_xpdb | Add, remove or rename variables in an xpdb |
| mutate_files | Mutate the file table for an xpose data object |
| mutate_prm | Transform parameter values in place |
| mutate.xpose_set | Mutation method for xpose_set |
| nlmixr2_as_xtra | Convenience function for ingesting an nlmixr2 model to xpose... |
| nlmixr2_prm_associations | Based on associations baked into nlmixr2, automatically add... |
| nlmixr_example | Generate example 'xp_xtras' objects from nlmixr2 fits |
| normalize_etas | Normalize etas by their omega- or empirical-SD-implied scale |
| param_selector | Select parameter row number |
| patch_condn | Patch condition number extraction |
| persist_process_presets | Write current process presets out to a '.Rprofile' |
| pheno_base | An 'xp_xtras' example of a base model |
| pheno_final | An 'xp_xtras' example of a final model |
| pheno_saem | An 'xp_xtras' example of a final model |
| pheno_set | A more complex example of 'xpose_set' object |
| pipe | Pipe operator |
| pkpd_m3 | An 'xp_xtras' example of an M3 model |
| pkpd_m3_df | An 'xp_xtras' example of an M3 model (dataset) |
| plot.xpose_data | Generate a batch of diagnostic plots from an 'xpdb' |
| pred_vs_pred | Compare model predictions |
| print.xpose_data | Print an xpose_data object |
| print.xpose_plot | Draw an xpose_plot object |
| prm_cov | Continuous/categorical covariate effect tables |
| proc_levels | Convert levels list into tibble |
| pull.xpose_set | Pulling method for xpose_set |
| recalc_shk | Recalculate eta shrinkage from individual estimates |
| reexports | Objects exported from other packages |
| rename.xpose_set | Renaming method for xpose_set |
| reportable_digits | Reportable digits for model fit |
| reshape_set | Convert xpose_set to a nested list. |
| roc_by_mod | ROC curve across models |
| roc_plot | ROC Plot for categorical DVs |
| select_subset | Convenience wrapper for tidyselect |
| select.xpose_set | Selection method for xpose_set |
| set_base_model | Base model for 'xpose_set' |
| set_default_labs | Set default plot label overrides on an 'xp_xtras' object |
| set_default_plots | Set a default plot spec on an 'xp_xtras' object |
| set_default_watermark | Set default watermark options on an 'xp_xtras' object |
| set_dv_probs | Set probability columns for categorical endpoints |
| set_option | Set an 'xpose' option |
| set_prop | Set a summary property |
| set_var_levels | Set variable levels |
| set_var_types | Set variable types |
| set_var_types.default | Set variable types |
| set_var_types_x | Set variable types |
| set_var_types.xp_xtra | Set variable types |
| set_xtras_options | Set 'xpose.xtras' session options |
| shark_colors | Change colors of shark plots |
| shark_plot | Individual contributions to dOFV |
| shk_grid_plots | Shrinkage contribution grid plots |
| shk_vs_catcov | Shrinkage contribution versus categorical covariates |
| shk_vs_contcov | Shrinkage contribution versus continuous covariates |
| summarise_xpdb | Group/ungroup and summarize variables in an xpdb |
| test_nlmixr2_has_fit | Test if xpose data object has a fit object |
| test_nlmixr2_is_old_fit | Test if nlmixr2 fit is from an old rxode2 version |
| test_xpdb | Logical instead of exception for xpose data check |
| two_set_dots | Typical processing for plots of 2 sets |
| val2lvl | Translate values to levels |
| vismodegib | A tibble of mock data used for fitting vismodegib models |
| vismo_dtmm | An 'xp_xtras' example of the discrete-time Markov model of... |
| vismo_pomod | An 'xp_xtras' example of the proportional odds categorical... |
| waterfalls | Specific waterfall plots |
| wrap_xp_ggally | Ensure consistent style with 'GGally' functions |
| xp4_xtra_theme | Updated version of the xpose4 theme |
| xpdb_set | An example 'xpose_set' object |
| xpdb_x | An example 'xp_xtras' object |
| xp_from_bbr | Convenience function for ingesting a bbr model into xpose and... |
| xplot_binned | Generic binned trend plotting function |
| xplot_boxplot | Default xpose boxplot function |
| xplot_forest | Default xpose forest plot function |
| xplot_heatmap | Generic heatmap plotting function |
| xplot_pairs | Wrapper around ggpairs |
| xplot_rocplot | Default xpose ROC plot function |
| xpose_set | Generate a set of 'xpdb' objects |
| xpose.xtras-package | xpose.xtras: Extra Functionality for the 'xpose' Package |
| xp_var | 'xp_var' Method |
| xp_xtras | Convert an object to an 'xpose_data' and 'xp_xtras' object |
| xp_xtra_theme | Extra theme defaults |
| xset_fitstats | Log-likelihood, AIC and BIC across an 'xpose_set' |
| xset_lineage | Determine lineage within a set |
| xset_waterfall | Waterfall plot |
| xtras_data | Read model outputs directly into an 'xp_xtras' object |
