Man pages for gratia
Graceful 'ggplot'-Based Graphics and Other Functions for GAMs Fitted Using 'mgcv'
| add_confint | Add a confidence interval to an existing object |
| add_constant | Add a constant to estimated values |
| add_fitted | Add fitted values from a model to a data frame |
| add_fitted.gam | Add fitted values from a GAM to a data frame |
| add_fitted_samples | Add posterior draws from a model to a data object |
| add_partial_residuals | Add partial residuals |
| add_residuals | Add residuals from a model to a data frame |
| add_residuals.gam | Add residuals from a GAM to a data frame |
| add_sizer | Add indicators of significant change after SiZeR |
| appraise | Model diagnostic plots |
| basis | Basis expansions for smooths |
| basis_size | Extract basis dimension of a smooth |
| bird_move | Simulated bird migration data |
| boundary | Extract the boundary of a soap film smooth |
| check_user_select_smooths | Select smooths based on user's choices |
| coef.scam | Extract coefficients from a fitted 'scam' model. |
| compare_smooths | Compare smooths across models |
| conditional_values | Conditional predictions from a GAM |
| confint.fderiv | Point-wise and simultaneous confidence intervals for... |
| confint.gam | Point-wise and simultaneous confidence intervals for smooths |
| data_combos | All combinations of factor levels plus typical values of... |
| datagen | Generate data over the range of variables used in smooths |
| data_sim | Simulate example data for fitting GAMs |
| data_slice | Prepare a data slice through model covariates |
| derivatives | Derivatives of estimated smooths via finite differences |
| derivative_samples | Posterior expectations of derivatives from an estimated model |
| difference_smooths | Differences of factor smooth interactions |
| dispersion | Dispersion parameter for fitted model |
| draw | Generic plotting via 'ggplot2' |
| draw.basis | Plot basis functions |
| draw.compare_smooths | Plot comparisons of smooths |
| draw.conditional_values | Plot conditional predictions |
| draw.derivatives | Plot derivatives of smooths |
| draw.difference_smooth | Plot differences of smooths |
| draw.evaluated_parametric_term | Plot estimated parametric effects |
| draw.gam | Plot estimated smooths from a fitted GAM |
| draw.gamlss | Plot smooths of a GAMLSS model estimated by 'GJRM::gamlss' |
| draw.mgcv_smooth | Plot basis functions |
| draw.pairwise_concurvity | Plot concurvity measures |
| draw_parametric_effect | Internal function to draw an individual parametric effect |
| draw.parametric_effects | Plot estimated effects for model parametric terms |
| draw.penalty_df | Display penalty matrices of smooths using 'ggplot' |
| draw.rootogram | Draw a rootogram |
| draw.smooth_estimates | Plot the result of a call to 'smooth_estimates()' |
| draw.smooth_samples | Plot posterior smooths |
| edf | Effective degrees of freedom for smooths and GAMs |
| eval_smooth | S3 methods to evaluate individual smooths |
| evaluate_parametric_term | Evaluate parametric model terms |
| evaluate_smooth | Evaluate a smooth |
| evenly | Create a sequence of evenly-spaced values |
| factor_combos | All combinations of factor levels |
| family.gam | Extract family objects from models |
| family_name | Name of family used to fit model |
| family_type | Extracts the type of family in a consistent way |
| fderiv | First derivatives of fitted GAM functions |
| fitted_samples | Draw fitted values from the posterior distribution |
| fitted_values | Generate fitted values from a estimated GAM |
| fixef | Extract fixed effects estimates |
| fixef.gam | Extract fixed effects estimates from a fitted GAM |
| fix_offset | Fix the names of a data frame containing an offset variable. |
| gaussian_draws | Posterior samples using a simple Metropolis Hastings sampler |
| get_by_smooth | Extract an factor-by smooth by name |
| get_smooth | Extract an mgcv smooth by name |
| get_smooths_by_id | Extract an mgcv smooth given its position in the model object |
| gratia-package | gratia: Graceful 'ggplot'-Based Graphics and Other Functions... |
| gss_vocab | Data from the General Social Survey (GSS) from the National... |
| gw_functions | Gu and Wabha test functions |
| has_theta | Are additional parameters available for a GAM? |
| is_by_smooth | Tests for by variable smooths |
| is_factor_term | Is a model term a factor (categorical)? |
| is_mgcv_smooth | Check if objects are smooths or are a particular type of... |
| is_offset | Is a model term an offset? |
| link | Extract link and inverse link functions from models |
| load_mgcv | Load mgcv quietly |
| lp_matrix | Return the linear prediction matrix of a fitted GAM |
| lss_parameters | General names of LSS parameters for each GAM family |
| mh_draws | Posterior samples using a Gaussian approximation to the... |
| model_concurvity | Concurvity of an estimated GAM |
| model_constant | Extract the model constant term |
| model_vars | List the variables involved in a model fitted with a formula |
| nb_theta | Negative binomial parameter theta |
| nested_partial_residuals | Partial residuals in nested form |
| nested_rug_values | Values for rug plot in nested form |
| n_eta | The Number of linear predictors in model |
| n_smooths | How many smooths in a fitted model |
| null_deviance | Extract the null deviance of a fitted model |
| observed_fitted_plot | Plot of fitted against observed response values |
| overview | Provides an overview of a model and the terms in that model |
| parametric_effects | Estimated values for parametric model terms |
| parametric_terms | Names of any parametric terms in a GAM |
| partial_derivatives | Partial derivatives of estimated multivariate smooths via... |
| partial_residuals | Partial residuals |
| penalty | Extract and tidy penalty matrices |
| post_draws | Low-level Functions to generate draws from the posterior... |
| posterior_samples | Draw samples from the posterior distribution of an estimated... |
| post_link_funs | A list of transformation functions named for LSS parameters... |
| predicted_samples | Draw new response values from the conditional distribution of... |
| qq_plot | Quantile-quantile plot of model residuals |
| ref_level | Return the reference or specific level of a factor |
| ref_sims | Reference simulation data |
| reorder_fs_smooth_terms | Reorder random factor smooth terms to place factor last |
| reorder_tensor_smooth_terms | Reorder tensor product terms for nicer plotting |
| rep_first_factor_value | Repeat the first level of a factor n times |
| residuals_hist_plot | Histogram of model residuals |
| residuals_linpred_plot | Plot of residuals versus linear predictor values |
| response_derivatives | Derivatives on the response scale from an estimated GAM |
| rootogram | Rootograms to assess goodness of model fit |
| seq_min_max_eps | Create a sequence of evenly-spaced values adjusted to... |
| shift_values | Shift numeric values in a data frame by an amount 'eps' |
| simulate | Simulate from the posterior distribution of a GAM |
| smallAges | Lead-210 age-depth measurements for Small Water |
| smooth_coef_indices | Indices of the parametric terms for a particular smooth |
| smooth_coefs | Coefficients for a particular smooth |
| smooth_data | Generate regular data over the covariates of a smooth |
| smooth_dim | Dimension of a smooth |
| smooth_estimates | Evaluate smooths at covariate values |
| smooth_label | Extract the label for a smooth used by 'mgcv' |
| smooths | Names of smooths in a GAM |
| smooth_samples | Posterior draws for individual smooths |
| smooth_terms | List the variables involved in smooths |
| smooth_type | Determine the type of smooth and return it n a human readable... |
| spline_values | Evaluate a spline at provided covariate values |
| spline_values2 | Evaluate a spline at provided covariate values |
| term_names | Extract names of all variables needed to fit a GAM or a... |
| term_variables | Names of variables involved in a specified model term |
| theta | General extractor for additional parameters in mgcv models |
| tidy_basis | A tidy basis representation of a smooth object |
| to_na | Sets the elements of vector to 'NA' |
| too_far | Exclude values that lie too far from the support of data |
| too_far_to_na | Set rows of data to 'NA' if the lie too far from a reference... |
| transform_fun | Transform estimated values and confidence intervals by... |
| typical_values | Typical values of model covariates |
| user_draws | Handle user-supplied posterior draws |
| variance_comp | Variance components of smooths from smoothness estimates |
| vars_from_label | Returns names of variables from a smooth label |
| which_smooths | Identify a smooth term by its label |
| worm_plot | Worm plot of model residuals |
| zooplankton | Madison lakes zooplankton data |
