A B C D E G I L M P R S T misc
| inlabru-package | inlabru |
| as.bru_options | Create or update an options objects |
| as.character.bru_log | Access methods for 'bru_log' objects |
| bincount | 1D LGCP bin count simulation and comparison with data |
| bm_list | Methods for mapper lists |
| bru | Convenient model fitting using (iterated) INLA |
| bru_call_options | Additional bru options |
| bru_component | Latent model component construction |
| bru_component_list | Methods for inlabru component lists |
| bru_compute_linearisation | Compute inlabru model linearisation information |
| bru_compute_linearisation.bru_like | Compute inlabru model linearisation information |
| bru_compute_linearisation.bru_like_list | Compute inlabru model linearisation information |
| bru_compute_linearisation.bru_model | Compute inlabru model linearisation information |
| bru_compute_linearisation.component | Compute inlabru model linearisation information |
| bru_convergence_plot | Plot inlabru convergence diagnostics |
| bru_fill_missing | Fill in missing values in Spatial grids |
| bru_forward_transformation | Transformation tools |
| bru_get_mapper | Extract mapper information from INLA model component objects |
| bru_get_mapper.inla.rgeneric | Extract mapper information from INLA model component objects |
| bru_get_mapper.inla.spde | Extract mapper information from INLA model component objects |
| bru_get_mapper_safely | Extract mapper information from INLA model component objects |
| bru_info | Methods for bru_info objects |
| bru_info.bru | Methods for bru_info objects |
| bru_info.character | Methods for bru_info objects |
| bru_inverse_transformation | Transformation tools |
| bru_log | Access methods for 'bru_log' objects |
| bru_log.bru | Access methods for 'bru_log' objects |
| bru_log.bru_log | Access methods for 'bru_log' objects |
| bru_log.character | Access methods for 'bru_log' objects |
| bru_log.iinla | Access methods for 'bru_log' objects |
| bru_log_bookmark | Methods for 'bru_log' bookmarks |
| bru_log_bookmarks | Methods for 'bru_log' bookmarks |
| bru_log_index | Position methods for 'bru_log' objects |
| bru_log_message | Add a log message |
| bru_log_new | Create a 'bru_log' object |
| bru_log_offset | Position methods for 'bru_log' objects |
| bru_log_reset | Clear log contents |
| bru_make_stack | Build an inla data stack from linearisation information |
| bru_make_stack.bru_like | Build an inla data stack from linearisation information |
| bru_make_stack.bru_like_list | Build an inla data stack from linearisation information |
| bru_mapper | Constructors for 'bru_mapper' objects |
| bru_mapper.default | Constructors for 'bru_mapper' objects |
| bru_mapper.fm_mesh_1d | Mapper for 'fm_mesh_1d' |
| bru_mapper.fm_mesh_2d | Mapper for 'fm_mesh_2d' |
| bru_mapper.inla.mesh | Mapper for 'fm_mesh_2d' |
| bru_mapper.inla.mesh.1d | Mapper for 'fm_mesh_1d' |
| bru_mapper_aggregate | Mapper for aggregation |
| bru_mapper_collect | Mapper for concatenated variables |
| bru_mapper_const | Constant mapper |
| bru_mapper_define | Constructors for 'bru_mapper' objects |
| bru_mapper_factor | Mapper for factor variables |
| bru_mapper_generics | Generic methods for bru_mapper objects |
| bru_mapper_harmonics | Mapper for cos/sin functions |
| bru_mapper_index | Mapper for indexed variables |
| bru_mapper_linear | Mapper for a linear effect |
| bru_mapper_logsumexp | Mapper for log-sum-exp aggregation |
| bru_mapper_marginal | Mapper for marginal distribution transformation |
| bru_mapper_matrix | Mapper for matrix multiplication |
| bru_mapper_mesh_B | Mapper for basis conversion |
| bru_mapper_multi | Mapper for tensor product domains |
| bru_mapper_pipe | Mapper for linking several mappers in sequence |
| bru_mapper_scale | Mapper for element-wise scaling |
| bru_mapper_shift | Mapper for element-wise shifting |
| bru_mapper_taylor | Mapper for linear Taylor approximations |
| bru_options | Create or update an options objects |
| bru_options_check | Create or update an options objects |
| bru_options_default | Create or update an options objects |
| bru_options_get | Create or update an options objects |
| bru_options_reset | Create or update an options objects |
| bru_options_set | Create or update an options objects |
| bru_rerun | Convenient model fitting using (iterated) INLA |
| bru_safe_inla | Load INLA safely for examples and tests |
| bru_safe_sp | Check for potential 'sp' version compatibility issues |
| bru_standardise_names | Standardise inla hyperparameter names |
| bru_summarise | Summarise and annotate data |
| bru_timings_plot | Plot inlabru iteration timings |
| bru_transformation | Transformation tools |
| c.bm_list | Methods for mapper lists |
| c.bru_like | Observation model construction for usage with 'bru()' |
| c.bru_like_list | Observation model construction for usage with 'bru()' |
| c.bru_log | Access methods for 'bru_log' objects |
| c.bru_mapper | Methods for mapper lists |
| c.component | Methods for inlabru component lists |
| c.component_list | Methods for inlabru component lists |
| component | Latent model component construction |
| component.character | Latent model component construction |
| component_eval | Evaluate component values in predictor expressions |
| component_list | Methods for inlabru component lists |
| component_list.formula | Methods for inlabru component lists |
| component_list.list | Methods for inlabru component lists |
| countdata1 | 1-Dimensional Homogeneous Poisson example. |
| countdata2 | 1-Dimensional NonHomogeneous Poisson example. |
| countdata3a | 1-Dimensional NonHomogeneous Poisson example. |
| countdata3b | 1-Dimensional NonHomogeneous Poisson example. |
| cov2_1D | 1-Dimensional NonHomogeneous Poisson example. |
| deltaIC | Summarise DIC and WAIC from 'lgcp' objects. |
| devel.cvmeasure | Variance and correlations measures for prediction components |
| evaluate_comp_lin | Compute all component linearisations |
| evaluate_index | Compute all index values |
| evaluate_inputs | Compute all component inputs |
| eval_spatial | Evaluate spatial covariates |
| eval_spatial.sf | Evaluate spatial covariates |
| eval_spatial.SpatialGridDataFrame | Evaluate spatial covariates |
| eval_spatial.SpatialPixelsDataFrame | Evaluate spatial covariates |
| eval_spatial.SpatialPolygonsDataFrame | Evaluate spatial covariates |
| eval_spatial.SpatRaster | Evaluate spatial covariates |
| eval_spatial.stars | Evaluate spatial covariates |
| expand_labels | Expand labels |
| E_nc1 | 1-Dimensional Homogeneous Poisson example. |
| E_nc2 | 1-Dimensional NonHomogeneous Poisson example. |
| E_nc3a | 1-Dimensional NonHomogeneous Poisson example. |
| E_nc3b | 1-Dimensional NonHomogeneous Poisson example. |
| generate | Generate samples from fitted bru models |
| generate.bru | Generate samples from fitted bru models |
| gg | ggplot2 geomes for inlabru related objects |
| gg.bru_prediction | Geom for predictions |
| gg.data.frame | Geom for data.frame |
| gg.inla.mesh | Geom for inla.mesh objects |
| gg.inla.mesh.1d | Geom for inla.mesh.1d objects |
| gg.matrix | Geom for matrix |
| gg.prediction | Geom for predictions |
| gg.RasterLayer | Geom for RasterLayer objects |
| gg.sf | Geom helper for sf objects |
| gg.SpatialGridDataFrame | Geom for SpatialGridDataFrame objects |
| gg.SpatialLines | Geom for SpatialLines objects |
| gg.SpatialPixels | Geom for SpatialPixels objects |
| gg.SpatialPixelsDataFrame | Geom for SpatialPixelsDataFrame objects |
| gg.SpatialPoints | Geom for SpatialPoints objects |
| gg.SpatialPolygons | Geom for SpatialPolygons objects |
| gg.SpatRaster | Geom wrapper for SpatRaster objects |
| globe | Visualize a globe using RGL |
| glplot | Render objects using RGL |
| glplot.fm_mesh_2d | Render objects using RGL |
| glplot.inla.mesh | Render objects using RGL |
| glplot.SpatialLines | Render objects using RGL |
| glplot.SpatialPoints | Render objects using RGL |
| gm | ggplot geom for spatial data |
| gmap | Plot a map using extent of a spatial object |
| gorillas | Gorilla nesting sites |
| gorillas_sf | Gorilla nesting sites in sf format |
| gorillas_sf_gcov | Gorilla nesting sites in sf format |
| ibm_eval | Generic methods for bru_mapper objects |
| ibm_eval.bru_mapper_aggregate | Mapper for aggregation |
| ibm_eval.bru_mapper_collect | Mapper for concatenated variables |
| ibm_eval.bru_mapper_const | Constant mapper |
| ibm_eval.bru_mapper_logsumexp | Mapper for log-sum-exp aggregation |
| ibm_eval.bru_mapper_marginal | Mapper for marginal distribution transformation |
| ibm_eval.bru_mapper_multi | Mapper for tensor product domains |
| ibm_eval.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_eval.bru_mapper_scale | Mapper for element-wise scaling |
| ibm_eval.bru_mapper_shift | Mapper for element-wise shifting |
| ibm_eval.bru_mapper_taylor | Mapper for linear Taylor approximations |
| ibm_eval.default | Generic methods for bru_mapper objects |
| ibm_eval2 | Generic methods for bru_mapper objects |
| ibm_eval2.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_eval2.default | Generic methods for bru_mapper objects |
| ibm_inla_subset | Generic methods for bru_mapper objects |
| ibm_inla_subset.default | Generic methods for bru_mapper objects |
| ibm_invalid_output | Generic methods for bru_mapper objects |
| ibm_invalid_output.bru_mapper_collect | Mapper for concatenated variables |
| ibm_invalid_output.bru_mapper_index | Mapper for indexed variables |
| ibm_invalid_output.bru_mapper_multi | Mapper for tensor product domains |
| ibm_invalid_output.default | Generic methods for bru_mapper objects |
| ibm_is_linear | Generic methods for bru_mapper objects |
| ibm_is_linear.bru_mapper_collect | Mapper for concatenated variables |
| ibm_is_linear.bru_mapper_multi | Mapper for tensor product domains |
| ibm_is_linear.default | Generic methods for bru_mapper objects |
| ibm_jacobian | Generic methods for bru_mapper objects |
| ibm_jacobian.bru_mapper_aggregate | Mapper for aggregation |
| ibm_jacobian.bru_mapper_collect | Mapper for concatenated variables |
| ibm_jacobian.bru_mapper_const | Constant mapper |
| ibm_jacobian.bru_mapper_factor | Mapper for factor variables |
| ibm_jacobian.bru_mapper_fm_mesh_1d | Mapper for 'fm_mesh_1d' |
| ibm_jacobian.bru_mapper_fm_mesh_2d | Mapper for 'fm_mesh_2d' |
| ibm_jacobian.bru_mapper_harmonics | Mapper for cos/sin functions |
| ibm_jacobian.bru_mapper_index | Mapper for indexed variables |
| ibm_jacobian.bru_mapper_inla_mesh_1d | Mapper for 'fm_mesh_1d' |
| ibm_jacobian.bru_mapper_inla_mesh_2d | Mapper for 'fm_mesh_2d' |
| ibm_jacobian.bru_mapper_linear | Mapper for a linear effect |
| ibm_jacobian.bru_mapper_logsumexp | Mapper for log-sum-exp aggregation |
| ibm_jacobian.bru_mapper_marginal | Mapper for marginal distribution transformation |
| ibm_jacobian.bru_mapper_matrix | Mapper for matrix multiplication |
| ibm_jacobian.bru_mapper_mesh_B | Mapper for basis conversion |
| ibm_jacobian.bru_mapper_multi | Mapper for tensor product domains |
| ibm_jacobian.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_jacobian.bru_mapper_scale | Mapper for element-wise scaling |
| ibm_jacobian.bru_mapper_shift | Mapper for element-wise shifting |
| ibm_jacobian.bru_mapper_taylor | Mapper for linear Taylor approximations |
| ibm_jacobian.default | Generic methods for bru_mapper objects |
| ibm_linear | Generic methods for bru_mapper objects |
| ibm_linear.bru_mapper_collect | Mapper for concatenated variables |
| ibm_linear.bru_mapper_multi | Mapper for tensor product domains |
| ibm_linear.default | Generic methods for bru_mapper objects |
| ibm_n | Generic methods for bru_mapper objects |
| ibm_n.bru_mapper_aggregate | Mapper for aggregation |
| ibm_n.bru_mapper_collect | Mapper for concatenated variables |
| ibm_n.bru_mapper_const | Constant mapper |
| ibm_n.bru_mapper_factor | Mapper for factor variables |
| ibm_n.bru_mapper_fm_mesh_1d | Mapper for 'fm_mesh_1d' |
| ibm_n.bru_mapper_fm_mesh_2d | Mapper for 'fm_mesh_2d' |
| ibm_n.bru_mapper_harmonics | Mapper for cos/sin functions |
| ibm_n.bru_mapper_inla_mesh_1d | Mapper for 'fm_mesh_1d' |
| ibm_n.bru_mapper_inla_mesh_2d | Mapper for 'fm_mesh_2d' |
| ibm_n.bru_mapper_linear | Mapper for a linear effect |
| ibm_n.bru_mapper_marginal | Mapper for marginal distribution transformation |
| ibm_n.bru_mapper_matrix | Mapper for matrix multiplication |
| ibm_n.bru_mapper_mesh_B | Mapper for basis conversion |
| ibm_n.bru_mapper_multi | Mapper for tensor product domains |
| ibm_n.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_n.bru_mapper_scale | Mapper for element-wise scaling |
| ibm_n.bru_mapper_shift | Mapper for element-wise shifting |
| ibm_n.bru_mapper_taylor | Mapper for linear Taylor approximations |
| ibm_n.default | Generic methods for bru_mapper objects |
| ibm_names | Generic methods for bru_mapper objects |
| ibm_names.bru_mapper_collect | Mapper for concatenated variables |
| ibm_names.bru_mapper_multi | Mapper for tensor product domains |
| ibm_names.default | Generic methods for bru_mapper objects |
| ibm_names<- | Generic methods for bru_mapper objects |
| ibm_names<-.bru_mapper_collect | Mapper for concatenated variables |
| ibm_names<-.bru_mapper_multi | Mapper for tensor product domains |
| ibm_n_output | Generic methods for bru_mapper objects |
| ibm_n_output.bru_mapper_aggregate | Mapper for aggregation |
| ibm_n_output.bru_mapper_collect | Mapper for concatenated variables |
| ibm_n_output.bru_mapper_marginal | Mapper for marginal distribution transformation |
| ibm_n_output.bru_mapper_multi | Mapper for tensor product domains |
| ibm_n_output.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_n_output.bru_mapper_scale | Mapper for element-wise scaling |
| ibm_n_output.bru_mapper_shift | Mapper for element-wise shifting |
| ibm_n_output.bru_mapper_taylor | Mapper for linear Taylor approximations |
| ibm_n_output.default | Generic methods for bru_mapper objects |
| ibm_simplify | Generic methods for bru_mapper objects |
| ibm_simplify.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_simplify.default | Generic methods for bru_mapper objects |
| ibm_values | Generic methods for bru_mapper objects |
| ibm_values.bru_mapper_aggregate | Mapper for aggregation |
| ibm_values.bru_mapper_collect | Mapper for concatenated variables |
| ibm_values.bru_mapper_const | Constant mapper |
| ibm_values.bru_mapper_factor | Mapper for factor variables |
| ibm_values.bru_mapper_fm_mesh_1d | Mapper for 'fm_mesh_1d' |
| ibm_values.bru_mapper_fm_mesh_2d | Mapper for 'fm_mesh_2d' |
| ibm_values.bru_mapper_inla_mesh_1d | Mapper for 'fm_mesh_1d' |
| ibm_values.bru_mapper_inla_mesh_2d | Mapper for 'fm_mesh_2d' |
| ibm_values.bru_mapper_linear | Mapper for a linear effect |
| ibm_values.bru_mapper_marginal | Mapper for marginal distribution transformation |
| ibm_values.bru_mapper_matrix | Mapper for matrix multiplication |
| ibm_values.bru_mapper_mesh_B | Mapper for basis conversion |
| ibm_values.bru_mapper_multi | Mapper for tensor product domains |
| ibm_values.bru_mapper_pipe | Mapper for linking several mappers in sequence |
| ibm_values.bru_mapper_scale | Mapper for element-wise scaling |
| ibm_values.bru_mapper_shift | Mapper for element-wise shifting |
| ibm_values.bru_mapper_taylor | Mapper for linear Taylor approximations |
| ibm_values.default | Generic methods for bru_mapper objects |
| inla.stack.mjoin | Join stacks intended to be run with different likelihoods |
| inlabru | inlabru |
| ipoints | Generate integration points |
| lambda1_1D | 1-Dimensional Homogeneous Poisson example. |
| lambda2_1D | 1-Dimensional NonHomogeneous Poisson example. |
| lambda3_1D | 1-Dimensional NonHomogeneous Poisson example. |
| length.bru_log | Access methods for 'bru_log' objects |
| lgcp | Log Gaussian Cox process (LGCP) inference using INLA |
| like | Observation model construction for usage with 'bru()' |
| like_list | Observation model construction for usage with 'bru()' |
| like_list.bru_like | Observation model construction for usage with 'bru()' |
| like_list.list | Observation model construction for usage with 'bru()' |
| mexdolphin | Pan-tropical spotted dolphins in the Gulf of Mexico |
| mexdolphin_sf | Pan-tropical spotted dolphins in the Gulf of Mexico |
| mrsea | Marine renewables strategic environmental assessment |
| multiplot | Multiple ggplots on a page. |
| pixels | Generate 'SpatialPixels' covering an 'inla.mesh' |
| plot.bru | Plot method for posterior marginals estimated by bru |
| plot.bru_prediction | Plot prediction using ggplot2 |
| plot.prediction | Plot prediction using ggplot2 |
| plotsample | Create a plot sample. |
| point2count | Convert a plot sample of points into one of counts. |
| Poisson1_1D | 1-Dimensional Homogeneous Poisson example. |
| Poisson2_1D | 1-Dimensional NonHomogeneous Poisson example. |
| Poisson3_1D | 1-Dimensional NonHomogeneous Poisson example. |
| predict.bru | Prediction from fitted bru model |
| print.bru_log | Access methods for 'bru_log' objects |
| print.bru_mapper | mapper object summaries |
| print.summary_bru | Summary for an inlabru fit |
| print.summary_bru_info | Methods for bru_info objects |
| print.summary_bru_mapper | mapper object summaries |
| print.summary_bru_options | Print inlabru options |
| pts1 | 1-Dimensional Homogeneous Poisson example. |
| pts2 | 1-Dimensional NonHomogeneous Poisson example. |
| pts3 | 1-Dimensional NonHomogeneous Poisson example. |
| robins_subset | robins_subset |
| sample.lgcp | Sample from an inhomogeneous Poisson process |
| seals | Seal pups |
| seals_sp | Seal pups |
| shrimp | Blue and red shrimp in the Western Mediterranean Sea |
| sline | Convert data frame to SpatialLinesDataFrame |
| spatial.to.ppp | Convert SpatialPoints and boundary polygon to spatstat ppp object |
| spde.posterior | Posteriors of SPDE hyper parameters and Matern correlation or covariance function. |
| spoly | Convert a data.frame of boundary points into a SpatialPolgonsDataFrame |
| summary.bru | Summary for an inlabru fit |
| summary.bru_info | Methods for bru_info objects |
| summary.bru_mapper | mapper object summaries |
| summary.bru_mapper_collect | mapper object summaries |
| summary.bru_mapper_multi | mapper object summaries |
| summary.bru_mapper_pipe | mapper object summaries |
| summary.bru_options | Print inlabru options |
| toygroups | Simulated 1D animal group locations and group sizes |
| [.bm_list | Methods for mapper lists |
| [.bru_like_list | Observation model construction for usage with 'bru()' |
| [.bru_log | Access methods for 'bru_log' objects |
| [.bru_mapper_collect | Mapper for concatenated variables |
| [.bru_mapper_multi | Mapper for tensor product domains |
| [.component_list | Methods for inlabru component lists |
| _PACKAGE | inlabru |