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method_func() `method_func<-`() spm_name(<discretization_method>) `spm_name<-`(<discretization_method>)
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Accessing OR replacing discretization_method model elements |
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spm_boundaries(<sspm_boundary>) `spm_boundaries<-`(<sspm_boundary>) spm_discret_method() `spm_discret_method<-`() spm_patches() `spm_patches<-`() spm_points() `spm_points<-`() spm_boundary() `spm_boundary<-`() spm_boundary_area() `spm_boundary_area<-`() spm_patches_area() `spm_patches_area<-`()
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Accessing OR replacing sspm_boundary model elements |
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spm_data() `spm_data<-`() spm_name(<sspm_dataset>) `spm_name<-`(<sspm_dataset>) spm_unique_ID(<sspm_dataset>) `spm_unique_ID<-`(<sspm_dataset>) spm_coords_col() `spm_coords_col<-`() spm_time(<sspm_dataset>) `spm_time<-`(<sspm_dataset>) spm_biomass_vars() `spm_biomass_vars<-`() spm_density_vars() `spm_density_vars<-`() spm_formulas() `spm_formulas<-`() spm_smoothed_data(<sspm_dataset>) `spm_smoothed_data<-`(<sspm_dataset>) spm_smoothed_fit() `spm_smoothed_fit<-`() spm_smoothed_vars() `spm_smoothed_vars<-`() is_mapped() `is_mapped<-`() spm_boundaries(<sspm_dataset>) `spm_boundaries<-`(<sspm_dataset>)
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Accessing OR replacing sspm_dataset model elements |
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spm_unique_ID(<sspm_fit>) `spm_unique_ID<-`(<sspm_fit>) spm_time(<sspm_fit>) `spm_time<-`(<sspm_fit>) spm_formulas(<sspm_fit>) `spm_formulas<-`(<sspm_fit>) spm_smoothed_data(<sspm_fit>) `spm_smoothed_data<-`(<sspm_fit>) spm_get_fit() `spm_get_fit<-`() spm_boundaries(<sspm_fit>) `spm_boundaries<-`(<sspm_fit>) spm_boundary(<sspm_fit>) `spm_boundary<-`(<sspm_fit>)
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Accessing OR replacing sspm_fit model elements |
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raw_formula() `raw_formula<-`() translated_formula() `translated_formula<-`() dataset() `dataset<-`() formula_vars() `formula_vars<-`() formula_type() `formula_type<-`() is_fitted() `is_fitted<-`() spm_response() `spm_response<-`() spm_lagged_vars() `spm_lagged_vars<-`()
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Accessing OR replacing sspm_formula model elements |
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as_discretization_method as_discretization_method,character,ANY-method as_discretization_method,missing,function-method
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Cast into a discretization_method object |
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borealis_simulated
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Simulated biomass data |
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catch_simulated
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Simulated catch data |
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discretization_method-class
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sspm discretization method class |
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`$`(<sspm_boundary>) `$`(<sspm_discrete_boundary>) `$`(<sspm_dataset>) `$`(<sspm>) `$`(<sspm_fit>)
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Extract methods |
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fit_smooths() fit_spm()
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Fit the GAM part of a sspm model |
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predict_intervals()
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GAM confidence and prediction intervals |
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map_formula() spm_smooth(<ANY>,<missing>,<ANY>) spm_smooth(<ANY>,<ANY>,<missing>) spm_smooth(<ANY>,<ANY>,<sspm_boundary>)
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Map model formula onto a sspm_dataset object |
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plot(<sspm_boundary>,<missing>) plot(<sspm_dataset>,<missing>) plot(<sspm_fit>,<missing>)
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Plot sspm objects |
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plot_trajectory()
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Plot trajectory of exploitation rate with biomass |
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predator_simulated
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Simulated predator data |
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predict(<sspm_fit>) predict(<sspm_dataset>)
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Predict with a SPM model |
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sfa_boundaries
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SFA boundaries data |
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smooth_time() smooth_space() smooth_space_time() smooth_lag()
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sspm Smoothing functions |
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spm()
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Fit an SPM model |
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spm_aggregate()
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Aggregate a dataset or fit data variable based on a boundary |
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spm_aggregate_catch()
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Update biomass value from catch adta |
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spm_as_boundary()
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Create a sspm_boundary object |
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spm_as_dataset()
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Create a sspm_dataset dataset structure |
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spm_discretize spm_discretize,sspm_boundary,missing,ANY-method spm_discretize,sspm_boundary,ANY,missing-method spm_discretize,sspm_boundary,character,ANY-method spm_discretize,sspm_boundary,function,ANY-method spm_discretize,sspm_boundary,discretization_method,ANY-method spm_discretize,sspm_discrete_boundary,ANY,ANY-method
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Discretize a sspm model object |
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spm_lag()
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Create lagged columns in a sspm smoothed data slot |
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spm_methods()
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Get the list of available discretization methods |
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spm_smooth()
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Smooth a variable in a sspm dataset |
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spm_smooth_methods()
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Get the list of available smoothing methods |
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spm_split()
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Split data in test and train sets |
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spm_name() `spm_name<-`() spm_datasets() `spm_datasets<-`() spm_boundaries() `spm_boundaries<-`() spm_smoothed_data() `spm_smoothed_data<-`() spm_time() `spm_time<-`() is_split() `is_split<-`() spm_unique_ID() `spm_unique_ID<-`()
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Accessing OR replacing sspm model elements |
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sspm-class
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sspm model class |
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sspm()
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Create a sspm model object |
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sspm_boundary-class
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sspm boundary structure |
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sspm_dataset-class
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sspm dataset structure |
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sspm_discrete_boundary-class
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sspm discrete boundary structure |
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sspm_fit-class
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sspm fit |
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sspm_formula-class
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sspm formula object |
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tesselate_voronoi()
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Perform voronoi tesselation |
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triangulate_delaunay()
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Perform delaunay triangulation |