'LiNGAM' Algorithms for Causal Discovery
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Documentation for package ‘lingamr’ version 0.1.2
Help Pages
| as_bootstrap_result | Collapse an ImputationBootstrapResult into a BootstrapResult |
| autoplot.LiMResult | Plot the causal graph of a LiMResult with ggplot2 |
| autoplot.LingamResult | Plot the causal graph of a LingamResult with ggplot2 |
| autoplot.MultiGroupLingamResult | Plot one group of a MultiGroupLingamResult with ggplot2 |
| autoplot.ParceLingamResult | Plot the causal graph of a ParceLingamResult with ggplot2 |
| autoplot.RCDResult | Plot the causal graph of an RCDResult with ggplot2 |
| bootstrap_with_imputation | Bootstrap with Multiple Imputation for Direct LiNGAM |
| check_var_stationarity | Check the stationarity of a fitted VAR-LiNGAM model |
| estimate_all_total_effects | Estimate the total causal effects between all variables at once |
| estimate_total_effect | Estimate the total causal effect between two specified variables |
| estimate_total_effect_parce | Estimate the total causal effect between two variables (ParceLiNGAM) |
| estimate_total_effect_rcd | Estimate the total causal effect between two variables (RCD) |
| estimate_var_total_effect | Estimate a total causal effect in a VAR-LiNGAM model |
| evaluate_model_fit | Evaluate model fit of an estimated causal graph |
| generate_lim_sample | Generate sample data for LiM (3 mixed variables) |
| generate_lingam_hard_sample | Generate a challenging sample data for Direct LiNGAM |
| generate_lingam_large_sample | Generate large-scale sample data to benchmark Direct LiNGAM scalability |
| generate_lingam_paradox_data | Generate Paradoxical Data Where DirectLiNGAM Struggles |
| generate_lingam_sample_10 | Generate 10-variable sample data for Direct LiNGAM |
| generate_lingam_sample_6 | Generate sample data for Direct LiNGAM (6 variables) |
| generate_multi_group_sample | Generate sample data for Multi-Group Direct LiNGAM (2 groups, 6 variables) |
| generate_parce_sample | Generate sample data with a latent confounder (for BottomUpParceLiNGAM) |
| generate_rcd_sample | Generate sample data with a latent confounder (for RCD) |
| generate_varlingam_sample | Generate sample data from a VAR-LiNGAM model |
| get_adjacency_matrix_summary | Create an adjacency matrix of representative causal-effect values from bootstrap results |
| get_causal_direction_counts | Get counts, proportions, and causal effects of causal directions |
| get_causal_order_stability | Evaluate the stability of the causal order from bootstrap |
| get_directed_acyclic_graph_counts | Get DAG counts |
| get_error_independence_p_values | Compute p-values for the independence test of the errors |
| get_error_independence_p_values_parce | Compute p-values for the independence of ParceLiNGAM residuals (HSIC-based) |
| get_error_independence_p_values_rcd | Compute p-values for the independence of RCD residuals (HSIC-based) |
| get_group_result | Extract a single group's result from a MultiGroupLingamResult |
| get_paths | Get all paths between two specified variables and their bootstrap probabilities |
| get_probabilities | Get bootstrap probabilities |
| get_total_causal_effects | Get a list of total causal effects |
| get_var_paths | Enumerate bootstrap paths between two variables in a VAR-LiNGAM model |
| get_var_probabilities | Bootstrap probabilities for a VAR-LiNGAM model |
| glance.LiMResult | Get a one-row summary of a LiMResult |
| glance.LingamResult | Get a one-row summary of a LingamResult |
| glance.MultiGroupLingamResult | Get a one-row summary of a MultiGroupLingamResult |
| glance.ParceLingamResult | Get a one-row summary of a ParceLingamResult |
| glance.RCDResult | Get a one-row summary of an RCDResult |
| lingam_direct | Direct LiNGAM |
| lingam_direct_bootstrap | Bootstrap for Direct LiNGAM |
| lingam_high_dim | High-Dimensional Direct LiNGAM |
| lingam_lim | LiM: LiNGAM for Mixed Data |
| lingam_multi_group | Multi-Group Direct LiNGAM |
| lingam_multi_group_bootstrap | Bootstrap for Multi-Group Direct LiNGAM |
| lingam_parce | Bottom-Up ParceLiNGAM |
| lingam_parce_bootstrap | Bootstrap for Bottom-Up ParceLiNGAM |
| lingam_rcd | RCD (Repetitive Causal Discovery) |
| lingam_rcd_bootstrap | Bootstrap for RCD |
| lingam_var | VAR-LiNGAM for time series causal discovery |
| lingam_var_bootstrap | Bootstrap for VAR-LiNGAM |
| make_prior_knowledge | Create a prior knowledge matrix |
| plot_adjacency | Plot a causal graph from an adjacency matrix with DiagrammeR |
| plot_bootstrap_probabilities | Draw bootstrap probabilities with DiagrammeR |
| plot_residual_qq | plot QQ |
| plot_varlingam_residual_qq | Q-Q plots of VAR-LiNGAM residuals |
| print.BootstrapResult | Display the contents of a BootstrapResult |
| print.causal_order_stability | print method for causal_order_stability |
| print.ImputationBootstrapResult | Print method for ImputationBootstrapResult |
| print.LiMResult | Print method for LiMResult |
| print.LingamResult | Print method for LingamResult |
| print.lingam_normality_test | Print method for lingam_normality_test |
| print.lingam_summary | print method for lingam_summary |
| print.MultiGroupBootstrapResult | Print method for MultiGroupBootstrapResult |
| print.MultiGroupLingamResult | Print method for MultiGroupLingamResult |
| print.ParceLingamResult | Print method for ParceLingamResult |
| print.RCDResult | Print method for RCDResult |
| print.VARBootstrapResult | Print a VARBootstrapResult |
| print.VARLiNGAMResult | Print method for VARLiNGAMResult |
| print.var_stationarity | Print method for var_stationarity |
| summary_lingam | Summarize the goodness-of-fit of a Direct LiNGAM model at once |
| test_residual_normality | Test normality of residuals from Direct LiNGAM |
| test_varlingam_residual_normality | Test the non-Gaussianity of VAR-LiNGAM residuals |
| test_varlingam_residual_normality_all | Run several normality tests on VAR-LiNGAM residuals at once |
| tidy.BootstrapResult | Convert a BootstrapResult to a tidy data.frame |
| tidy.ImputationBootstrapResult | Convert an ImputationBootstrapResult to a tidy data.frame |
| tidy.LiMResult | Convert a LiMResult to a tidy data.frame |
| tidy.LingamResult | Convert a LingamResult to a tidy data.frame |
| tidy.MultiGroupBootstrapResult | Convert a MultiGroupBootstrapResult to a tidy data.frame |
| tidy.MultiGroupLingamResult | Convert a MultiGroupLingamResult to a tidy data.frame |
| tidy.ParceLingamResult | Convert a ParceLingamResult to a tidy data.frame |
| tidy.RCDResult | Convert an RCDResult to a tidy data.frame |