Man pages for jtimonen/lgpr
Longitudinal Gaussian Process Regression
| add_dis_age | Easily add the disease-related age variable to a data frame |
| add_factor | Easily add a categorical covariate to a data frame |
| add_factor_crossing | Add a crossing of two factors to a data frame |
| adjusted_c_hat | Set the GP mean vector, taking TMM or other normalization... |
| apply_scaling | Apply variable scaling |
| as_character | Character representations of different formula objects |
| create_model | Create a model |
| create_model.covs_and_comps | Parse the covariates and model components from given data and... |
| create_model.formula | Create a model formula |
| create_model.likelihood | Parse the response variable and its likelihood model |
| create_model.options | Parse the given modeling options |
| create_model.prior | Parse given prior |
| create_plot_df | Helper function for plots |
| create_scaling | Create a standardizing transform |
| dinvgamma_stanlike | Density and quantile functions of the inverse gamma... |
| draw_pred | Draw pseudo-observations from posterior or prior predictive... |
| example_fit | Quick way to create an example lgpfit, useful for debugging |
| fit_summary | Print a fit summary. |
| GaussianPrediction-class | An S4 class to represent analytically computed predictive... |
| get_draws | Extract parameter draws from lgpfit or stanfit |
| get_pred | Extract model predictions and function posteriors |
| kernel | Compute a kernel matrix (covariance matrix) |
| KernelComputer-class | An S4 class to represent input for kernel matrix computations |
| lgp | Main function of the 'lgpr' package |
| lgpexpr-class | An S4 class to represent an lgp expression |
| lgpfit-class | An S4 class to represent the output of the 'lgp' function |
| lgpformula-class | An S4 class to represent an lgp formula |
| lgpmodel-class | An S4 class to represent an additive GP model |
| lgprhs-class | An S4 class to represent the right-hand side of an lgp... |
| lgpr-package | The 'lgpr' package. |
| lgpscaling-class | An S4 class to represent variable scaling |
| lgpsim-class | An S4 class to represent a data set simulated using the... |
| lgpterm-class | An S4 class to represent one formula term |
| model_summary | Print a model summary. |
| new_x | Create test input points for prediction |
| operations | Operations on formula terms and expressions |
| plot_api_c | Plot a generated/fit model component |
| plot_api_g | Plot longitudinal data and/or model fit so that each... |
| plot_components | Visualize all model components |
| plot_data | Vizualizing longitudinal data |
| plot_draws | Visualize the distribution of parameter draws |
| plot_inputwarp | Visualize input warping function with several steepness... |
| plot_invgamma | Plot the inverse gamma-distribution pdf |
| plot_pred | Visualizing model predictions or inferred covariate effects |
| plot_sim | Visualize an lgpsim object (simulated data) |
| ppc | Graphical posterior predictive checks |
| pred | Posterior predictions and function posteriors |
| Prediction-class | An S4 class to represent prior or posterior draws from an... |
| prior_pred | Prior (predictive) sampling |
| priors | Prior definitions |
| prior_to_num | Convert given prior to numeric format |
| read_proteomics_data | Function for reading the built-in proteomics data |
| relevances | Assess component relevances |
| s4_generics | S4 generics for lgpfit, lgpmodel, and other objects |
| sample_model | Fitting a model |
| select | Select relevant components |
| show | Printing formula object info using the show generic |
| sim.create_f | Simulate latent function components for longitudinal data... |
| sim.create_x | Create an input data frame X for simulated data |
| sim.create_y | Simulate noisy observations |
| sim.kernels | Compute all kernel matrices when simulating data |
| simulate_data | Generate an artificial longitudinal data set |
| split | Split data into training and test sets |
| testdata_001 | A very small artificial test data, used mostly for unit tests |
| testdata_002 | Medium-size artificial test data, used mostly for tutorials |
| validate | Validate S4 class objects |
| var_mask | Variance masking function |
| warp_input | Input warping function |
