├── .Rbuildignore ├── .github └── workflows │ ├── R-CMD-check-mac.yml │ ├── R-CMD-check-windows.yml │ ├── R-CMD-check.yml │ ├── cran-setup.yml │ └── pkgdown.yml ├── .gitignore ├── DESCRIPTION ├── MetricGraph.Rproj ├── NAMESPACE ├── NEWS.md ├── R ├── MetricGraph-package.R ├── RcppExports.R ├── data.R ├── graph_inference.R ├── graph_lgcp.R ├── graph_likelihoods.R ├── graph_lme.R ├── graph_spde.R ├── metric_graph.R ├── profile.R ├── psp_to_metricgraph.R ├── selected_inv.R ├── snap_lines.R ├── space_time.R ├── spde_covariance.R ├── spde_posteriors.R ├── spde_precision.R ├── spde_sampling.R └── util.R ├── README.md ├── cran_vignettes └── MetricGraph_pkg.Rmd ├── data ├── pems.rda └── pems_repl.rda ├── examples ├── MTP_exp.R ├── bm │ └── simple_bm_sim_est.r ├── check_fix.r ├── circle_example.R ├── data.pems │ ├── E.csv │ ├── PtE.csv │ ├── V.csv │ ├── Y.csv │ ├── graph_sensor_locations_bay.csv │ ├── lines.cpg │ ├── lines.dbf │ ├── lines.shp │ ├── lines.shx │ ├── old │ │ ├── PtE.csv │ │ ├── V.csv │ │ └── Y.csv │ └── save-data.R ├── debug.R ├── directional │ ├── example_directional_bru.r │ ├── example_wm_dir.r │ ├── example_wm_river_graph.r │ ├── integrate_out.R │ ├── river_kaggle2.R │ ├── space_time_ar_wm.R │ └── test_dir_alpha_inla.r ├── isotropic_test.R ├── lgcp_precompute_example.R ├── lgcp_replicate.R ├── likelihood_timings.R ├── make_logo.R ├── mesh_tests.R ├── onesided_estimation.R ├── onesided_explicit.R ├── onesided_implementation.R ├── pems-bru.R ├── pems_analysis.R ├── petrov_example.R ├── plot_examples.R ├── plot_spacetime_cov.R ├── river │ ├── mapview.r │ └── river_kaggle.R ├── space_jw.R ├── space_time.R ├── tadpole_KL.R ├── test_direction.R ├── tolerance_tests.R ├── tolerance_tests2.R └── weighted_example.R ├── index.md ├── inst ├── CITATION ├── COPYRIGHTS └── shared │ └── description ├── man ├── MetricGraph-package.Rd ├── augment.graph_lme.Rd ├── bru_mapper.inla_metric_graph_spde.Rd ├── drop_na.metric_graph_data.Rd ├── exp_covariance.Rd ├── figures │ └── logo.png ├── filter.metric_graph_data.Rd ├── gg_df.metric_graph_spde_result.Rd ├── glance.graph_lme.Rd ├── graph_bru_process_data.Rd ├── graph_components.Rd ├── graph_data_spde.Rd ├── graph_lgcp_sim.Rd ├── graph_lme.Rd ├── graph_spde.Rd ├── graph_spde_basis.Rd ├── graph_spde_make_A.Rd ├── graph_starting_values.Rd ├── lgcp_graph.Rd ├── linnet.to.graph.Rd ├── logo_lines.Rd ├── make_Q_euler.Rd ├── make_Q_spacetime.Rd ├── metric_graph.Rd ├── mutate.metric_graph_data.Rd ├── pems.Rd ├── pems_repl.Rd ├── pipe.Rd ├── plot.graph_bru_pred.Rd ├── plot.graph_bru_proc_pred.Rd ├── posterior_crossvalidation.Rd ├── precompute_lgcp_graph.Rd ├── predict.graph_lme.Rd ├── predict.inla_metric_graph_spde.Rd ├── predict.rspde_metric_graph.Rd ├── process_rspde_predictions.Rd ├── psp.to.graph.Rd ├── sample_spde.Rd ├── select.metric_graph_data.Rd ├── selected_inv.Rd ├── simulate.graph_lme.Rd ├── simulate_spacetime.Rd ├── spde_covariance.Rd ├── spde_metric_graph_result.Rd ├── spde_precision.Rd ├── spde_variance.Rd ├── stlpp.to.graph.Rd ├── summarise.metric_graph_data.Rd ├── summary.graph_lme.Rd ├── summary.metric_graph.Rd ├── summary.metric_graph_spde_result.Rd └── update_graph.Rd ├── pkgdown ├── _pkgdown.yml └── favicon │ ├── apple-touch-icon-120x120.png │ ├── apple-touch-icon-152x152.png │ ├── apple-touch-icon-180x180.png │ ├── apple-touch-icon-60x60.png │ ├── apple-touch-icon-76x76.png │ ├── apple-touch-icon.png │ ├── favicon-16x16.png │ ├── favicon-32x32.png │ └── favicon.ico ├── src ├── CB.cpp ├── RcppExports.cpp ├── aux_functions.cpp └── selected_inv.cpp ├── tests ├── testthat.R └── testthat │ ├── test.alpha2.R │ ├── test.alpha2.constraints.R │ ├── test.graph.R │ ├── test.variance.R │ ├── test_cgeneric.R │ ├── test_crossval.R │ ├── test_directional.R │ ├── test_exp.R │ ├── test_isoExp.R │ ├── test_precomputed_likelihood.R │ └── test_split_line.R └── vignettes ├── .gitignore ├── MetricGraph.Rmd ├── comparison.rmd ├── directional_model.Rmd ├── fem_models.Rmd ├── 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