| Subtract a pkproto object from a pk object | -.pk |
| Add a `pkproto` object to a `pk` object | +.pk |
| AAFE() | AAFE |
| Default method for AAFE() | AAFE.default |
| Calculate absolute average fold error (AAFE) | AAFE.pk |
| Add various `pkproto` objects to a `pk` object | add_pk |
| AFE() | AFE |
| Default method for AFE() | AFE.default |
| Calculate average fold error | AFE.pk |
| Akaike information criterion | AIC.pk |
| Analytic AUC for 1-compartment model | auc_1comp |
| Analytic AUC for 1-compartment model with specific clearance | auc_1comp_cl |
| Analytical AUC for the 2-compartment model | auc_2comp |
| AUC for flat model | auc_flat |
| Automatically select new time units | auto_units |
| Bayesian information criterion | BIC.pk |
| Calculate Hessian | calc_hessian |
| Non-compartmental analysis | calc_nca |
| Calculate RMSE (root mean squared error) | calc_rmse |
| Calculate r-squared for observed vs. predicted values | calc_rsq |
| Calculate parameter SDs | calc_sds_alerts |
| Check methods | check_method |
| Check models | check_model |
| Check new data | check_newdata |
| Check 1-compartment model parameters | check_params_1comp |
| Check 1-compartment model parameters | check_params_1comp_cl |
| Check 2-compartment model parameters | check_params_2comp |
| Check flat model parameters | check_params_flat |
| Check required status | check_required_status |
| Default method for checking required status | check_required_status.default |
| Check required status | check_required_status.pk |
| Coefficient standard deviations | coef_sd |
| Coefficient standard deviation default | coef_sd.default |
| Get coefficient standard deviations | coef_sd.pk |
| Get coefficients | coef.pk |
| Combined standard deviation | combined_sd |
| Model comparison | compare_models |
| Default method for compare_models() | compare_models.default |
| Model comparison for [pk()] objects | compare_models.pk |
| Get concentration scalings | conc_scale_use |
| Convert sample mean and SD to log10-scale | convert_summary_to_log10 |
| Helper function to convert time units | convert_time |
| Analytical 1-compartment model | cp_1comp |
| Analytical 1-compartment model with specific clearance | cp_1comp_cl |
| Analytical 2-compartment model | cp_2comp |
| Time derivative of analytical 2-compartment model | cp_2comp_dt |
| Flat model | cp_flat |
| CvTdb data | cvt |
| CvTdb download date | cvt_date |
| data_summary() | data_summary |
| Default method for data_summary() | data_summary.default |
| Data summary for a `pk` object | data_summary.pk |
| Log-normal distribution density function for summary data | dlnorm_summary |
| Normal distribution density function for summary data | dnorm_summary |
| do_data_info generic | do_data_info |
| do_data_info default method | do_data_info.default |
| calculate summary data info | do_data_info.pk |
| Fitting | do_fit |
| do_fit default method | do_fit.default |
| Do fitting | do_fit.pk |
| Prefitting | do_prefit |
| do_prefit default method | do_prefit.default |
| Do pre-fitting | do_prefit.pk |
| Preprocess data generic | do_preprocess |
| do_preprocess default method | do_preprocess.default |
| Do pre-processing | do_preprocess.pk |
| eval_tkstats() | eval_tkstats |
| Default method for eval_tkstats() | eval_tkstats.default |
| Evaluate TK statistics | eval_tkstats.pk |
| Facet a PK fit | facet_data |
| Fill parameters for 1-compartment model | fill_params_1comp |
| Fill parameters for 1-compartment model with specific clearance | fill_params_1comp_cl |
| Fill parameters for 2-compartment model | fill_params_2comp |
| Fill parameters for flat model | fill_params_flat |
| Fit a single group of data | fit_group |
| Fold error | fold_error |
| fold_error default method | fold_error.default |
| Fold errors | fold_error.pk |
| get_data() | get_data |
| get_data_group() | get_data_group |
| Default method for get_data_group() | get_data_group.default |
| Get data grouping | get_data_group.pk |
| get_data_info() | get_data_info |
| Default method for get_data_info() | get_data_info.default |
| Get data_info | get_data_info.pk |
| get_data_original() | get_data_original |
| Default method for get_data_original() | get_data_original.default |
| Get data_original | get_data_original.pk |
| get_data_sigma_group() | get_data_sigma_group |
| Default method for get_data_sigma_group() | get_data_sigma_group.default |
| Get data_sigma_group | get_data_sigma_group.pk |
| get_data_summary() | get_data_summary |
| Default method for get_data_summary() | get_data_summary.default |
| Default method for get_data() | get_data.default |
| Get data | get_data.pk |
| Get an elbow point | get_elbow |
| get_error_group() | get_error_group |
| Default method for get_error_group() | get_error_group.default |
| Get error group | get_error_group.pk |
| get_fit() | get_fit |
| Default method for get_fit() | get_fit.default |
| Get fits from a `pk` object | get_fit.pk |
| get_hessian() | get_hessian |
| Default method for get_hessian() | get_hessian.default |
| Get Hessian matrixes | get_hessian.pk |
| get_mapping() | get_mapping |
| Default method for get_mapping() | get_mapping.default |
| Get mapping | get_mapping.pk |
| get_nca() | get_nca |
| Default method for get_nca() | get_nca.default |
| Get NCA | get_nca.pk |
| Get parameters for 1-compartment model | get_params_1comp |
| Get parameters for 1-compartment model with clearance assumption | get_params_1comp_cl |
| Get parameters for 1-compartment model with clearance assumption | get_params_1comp_fup |
| Get parameters for 2-compartment model | get_params_2comp |
| Get parameters to be optimized for flat model | get_params_flat |
| Find the peak of a data series | get_peak |
| get_prefit() | get_prefit |
| Default method for get_prefit() | get_prefit.default |
| Get prefit | get_prefit.pk |
| get_scale_conc() | get_scale_conc |
| Default method for get_scale_conc() | get_scale_conc.default |
| Get scale_conc | get_scale_conc.pk |
| get_scale_time() | get_scale_time |
| Default method for get_scale_time() | get_scale_time.default |
| Get scale_time | get_scale_time.pk |
| get_settings_data_info() | get_settings_data_info |
| Default method for get_settings_data_info() | get_settings_data_info.default |
| Get settings_data_info | get_settings_data_info.pk |
| get_settings_optimx() | get_settings_optimx |
| Default method for get_settings_optimx() | get_settings_optimx.default |
| Get settings_optimx | get_settings_optimx.pk |
| get_settings_preprocess() | get_settings_preprocess |
| Default method for get_settings_preprocess() | get_settings_preprocess.default |
| Get settings_preprocess | get_settings_preprocess.pk |
| Get starting values for 1-compartment model | get_starts_1comp |
| Get starting values for 1-compartment model with specific clearance | get_starts_1comp_cl |
| Get starting values for 1-compartment model with specific clearance | get_starts_1comp_fup |
| Get starting values for 2-compartment model | get_starts_2comp |
| Get starting values for flat model | get_starts_flat |
| get_stat_error_model() | get_stat_error_model |
| Default method for get_stat_error_model() | get_stat_error_model.default |
| Get stat_error_model | get_stat_error_model.pk |
| get_stat_model() | get_stat_model |
| Default method for get_stat_model() | get_stat_model.default |
| Get stat_model | get_stat_model.pk |
| Get status | get_status |
| Default method for getting status | get_status.default |
| Check status of a `pk` object | get_status.pk |
| Get TK stats | get_tkstats |
| Default method for get_tkstats() | get_tkstats.default |
| Get TK stats | get_tkstats.pk |
| get_winning_model() | get_winning_model |
| Default method for get_winning_model() | get_winning_model.default |
| Get winning model | get_winning_model.pk |
| Inverse diagonal, method 1 | hess_sd1 |
| Inverse diagonal, method 2 | hess_sd2 |
| Ignore unused imports | ignore_unused_imports |
| Check whether an object is of class `pk` | is.pk |
| Check whether an object is of class `pk_faceted` | is.pk_faceted |
| Is an object class `pk_scales`? | is.pk_scales |
| Is an object pkproto? | is.pkproto |
| Log-likelihood | log_likelihood |
| Log-likelihood | logLik.pk |
| New mapping | mapping |
| Log10-scaled midpoint | midpt_log10 |
| 1-compartment model | model_1comp |
| 1-compartment model that assumes non-restrictive clearance | model_1comp_cl_nonrest |
| 1-compartment model that assumes restrictive clearance | model_1comp_cl_rest |
| 1-compartment model that assumes restrictive clearance optimizes Fup | model_1comp_fup |
| 2-compartment model | model_2comp |
| Flat model | model_flat |
| nca() | nca |
| Default method for nca() | nca.default |
| NCA for a `pk` object | nca.pk |
| Create a new `pk` object | pk |
| Add a `pkproto` object to a `pk` object | pk_add |
| Add pkproto object default method | pk_add.default |
| Add facet_data() | pk_add.pk_facet_data |
| Add a `pk_scales` object to a `pk` object. | pk_add.pk_scales |
| Add a `pk_settings_data_info` object. | pk_add.pk_settings_data_info |
| Add a `pk_settings_optimx` object. | pk_add.pk_settings_optimx |
| Add a `pk_settings_preprocess` object. | pk_add.pk_settings_preprocess |
| Add a `pk_stat_error_model` object. | pk_add.pk_stat_error_model |
| Add a `pk_stat_model` object. | pk_add.pk_stat_model |
| Add an `uneval` object | pk_add.uneval |
| Create a new `pk_model` object | pk_model |
| Subtract a `pkproto` object from a `pk` object | pk_subtract |
| Subtract pkproto object default method | pk_subtract.default |
| Subtract a `pk_stat_model` object. | pk_subtract.pk_stat_model |
| Toxicokinetic data from the "Concentration vs. Time Database" | pkdataset_nheerlcleaned |
| Plot a [pk()] object. | plot.pk |
| Get predictions | predict.pk |
| Print a user-friendly version of a `pk` object | print.pk |
| Convert invivoPKfit output table names to the CvTdb names | rename2_cvt |
| Get residuals | residuals.pk |
| Root mean squared error (RMSE) | rmse |
| Root mean squared error (RMSE) default method | rmse.default |
| Root mean squared error | rmse.pk |
| Helper function for calculating percentages of count data, by row | rowwise_calc_percentages |
| rsq() | rsq |
| Default method for rsq() | rsq.default |
| Calculate R-squared for observed vs. predicted values | rsq.pk |
| Scale concentrations | scale_conc |
| Scale times | scale_time |
| Data info settings | settings_data_info |
| `optimx` optimizer settings | settings_optimx |
| Data preprocessing settings | settings_preprocess |
| Error model | stat_error_model |
| Add PK model(s) to be fitted | stat_model |
| Status ID for data summary info | status_data_info |
| Status ID for fitting | status_fit |
| Status ID for initialization | status_init |
| Status ID for pre-fitting | status_prefit |
| Status ID for preprocessing | status_preprocess |
| Subtract various `pkproto` objects from a `pk` object | subtract_pk |
| Print summary of a `pk` object | summary.pk |
| Time conversion table | time_conversions |
| Allowable time units | time_units |
| Toxicokinetic statistics for 1-compartment model | tkstats_1comp |
| Toxicokinetic statistics for 1-compartment model with specific clearance | tkstats_1comp_cl |
| Toxicokinetic statistics for 1-compartment model | tkstats_2comp |
| TK stats for flat model | tkstats_flat |
| Transformed parameters for 2-compartment model | transformed_params_2comp |
| twofold_test() | twofold_test |
| Default method for twofold_test() | twofold_test.default |
| Evaluate whether data and predictions are within two-fold of mean or concentration, respectively | twofold_test.pk |
