| .checkRateFunctionOutput |
Man page
Source code
|
| .hasSlot |
Man page
Source code
|
| .onAttach |
Source code
|
| ArrayResourceBySize |
Man page
Source code
|
| ArrayResourceBySize_plot_data |
Man page
Source code
|
| ArraySpeciesBySize |
Man page
Source code
|
| ArraySpeciesBySize_plot_data |
Man page
Source code
|
| ArrayTimeByResourceBySize |
Man page
Source code
|
| ArrayTimeByResourceBySize_slice |
Source code
|
| ArrayTimeBySpecies |
Man page
Source code
|
| ArrayTimeBySpeciesBySize |
Man page
Source code
|
| ArrayTimeBySpeciesBySize_slice |
Source code
|
| BevertonHoltRDD |
Man page
Source code
|
| MizerParams |
Man page
|
| MizerParams-class |
Man page
|
| MizerScan |
Man page
Source code
|
| MizerSim |
Man page
Source code
|
| MizerSim-class |
Man page
|
| N |
Man page
Source code
|
| N.MizerSim |
Source code
|
| NOther |
Man page
Source code
|
| NResource |
Man page
Source code
|
| NResource.MizerSim |
Source code
|
| NS_interaction |
Man page
|
| NS_params |
Man page
|
| NS_sim |
Man page
|
| NS_species_params |
Man page
|
| NS_species_params_gears |
Man page
|
| Ops.ArrayResourceBySize |
Source code
|
| Ops.ArraySpeciesBySize |
Source code
|
| Ops.ArrayTimeByResourceBySize |
Source code
|
| Ops.ArrayTimeBySpecies |
Source code
|
| Ops.ArrayTimeBySpeciesBySize |
Source code
|
| RickerRDD |
Man page
Source code
|
| SheperdRDD |
Man page
Source code
|
| `$.gear_params` |
Source code
|
| `$.species_params` |
Source code
|
| `@.MizerParams` |
Source code
|
| `@.MizerSim` |
Source code
|
| `@<-.MizerParams` |
Source code
|
| `@<-.MizerSim` |
Source code
|
| `[.ArrayResourceBySize` |
Source code
|
| `[.ArraySpeciesBySize` |
Source code
|
| `[.ArrayTimeByResourceBySize` |
Source code
|
| `[.ArrayTimeBySpeciesBySize` |
Source code
|
| `[.ArrayTimeBySpecies` |
Source code
|
| `[.MizerScan` |
Source code
|
| `[.gear_params` |
Source code
|
| `[.species_params` |
Source code
|
| `catchability<-.MizerParams` |
Source code
|
| `catchability<-` |
Source code
|
| `ext_diffusion<-` |
Source code
|
| `ext_encounter<-` |
Source code
|
| `ext_mort<-` |
Source code
|
| `gear_params<-.MizerParams` |
Source code
|
| `gear_params<-` |
Source code
|
| `given_species_params<-.MizerParams` |
Source code
|
| `given_species_params<-` |
Source code
|
| `initialN<-.MizerParams` |
Source code
|
| `initialN<-` |
Source code
|
| `initialNOther<-` |
Source code
|
| `initialNResource<-.MizerParams` |
Source code
|
| `initialNResource<-` |
Source code
|
| `initial_effort<-` |
Source code
|
| `intake_max<-` |
Source code
|
| `interaction_matrix<-` |
Source code
|
| `maturity<-.MizerParams` |
Source code
|
| `maturity<-` |
Source code
|
| `metab<-` |
Source code
|
| `other_encounter<-` |
Source code
|
| `other_mort<-` |
Source code
|
| `other_params<-` |
Source code
|
| `pred_kernel<-` |
Source code
|
| `repro_prop<-` |
Source code
|
| `reproduction_level<-` |
Source code
|
| `resource_capacity<-` |
Source code
|
| `resource_dynamics<-` |
Source code
|
| `resource_level<-` |
Source code
|
| `resource_params<-` |
Source code
|
| `resource_rate<-` |
Source code
|
| `search_vol<-` |
Source code
|
| `second_order_w<-` |
Source code
|
| `selectivity<-.MizerParams` |
Source code
|
| `selectivity<-` |
Source code
|
| `slot<-` |
Source code
|
| `species_params<-.MizerParams` |
Source code
|
| `species_params<-` |
Source code
|
| `use_predation_diffusion<-` |
Source code
|
| addPlot |
Man page
Source code
|
| addPlot.ArrayResourceBySize |
Man page
Source code
|
| addPlot.ArraySpeciesBySize |
Man page
Source code
|
| addPlot.ArrayTimeByResourceBySize |
Man page
Source code
|
| addPlot.ArrayTimeBySpecies |
Man page
Source code
|
| addPlot.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| addSpecies |
Man page
Source code
|
| addSpecies.MizerParams |
Source code
|
| add_scan_annotations |
Man page
Source code
|
| add_total_line |
Man page
Source code
|
| adjustSizeGrid |
Man page
Source code
|
| adjustSizeGrid.MizerParams |
Man page
Source code
|
| age_mat |
Man page
Source code
|
| age_mat.MizerParams |
Source code
|
| age_mat_vB |
Man page
Source code
|
| age_mat_vB.MizerParams |
Man page
Source code
|
| age_mat_vB.data.frame |
Man page
Source code
|
| age_mat_vB.default |
Man page
Source code
|
| amp_window |
Source code
|
| animate |
Man page
Source code
|
| animate.ArrayTimeByResourceBySize |
Man page
Source code
|
| animate.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| animate.MizerSim |
Man page
Source code
|
| animateSpectra |
Man page
Source code
|
| animate_plotly |
Source code
|
| append_total_line |
Man page
Source code
|
| apply_upper_cutoff |
Source code
|
| apply_wlim |
Man page
Source code
|
| array_density_wrt |
Man page
Source code
|
| array_log_y |
Man page
Source code
|
| array_type |
Man page
Source code
|
| array_types |
Man page
|
| array_units |
Source code
|
| array_y_label |
Source code
|
| array_ylim |
Man page
Source code
|
| as.data.frame |
Man page
|
| as.data.frame.ArrayResourceBySize |
Source code
|
| as.data.frame.ArraySpeciesBySize |
Man page
Source code
|
| as.data.frame.ArrayTimeByResourceBySize |
Source code
|
| as.data.frame.ArrayTimeBySpecies |
Man page
Source code
|
| as.data.frame.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| as.data.frame.MizerScan |
Source code
|
| as_series_matrix |
Man page
Source code
|
| average_rates |
Source code
|
| balance_resource_logistic |
Man page
Source code
|
| balance_resource_semichemostat |
Man page
Source code
|
| bin_average_weight |
Man page
Source code
|
| bin_midpoints |
Man page
Source code
|
| biomass_bin_weight |
Source code
|
| box_pred_kernel |
Man page
Source code
|
| broadcast_dims |
Man page
Source code
|
| calc_selectivity |
Man page
Source code
|
| calculated_species_params |
Man page
Source code
|
| calibrateBiomass |
Man page
Source code
|
| calibrateBiomass.MizerParams |
Source code
|
| calibrateNumber |
Man page
Source code
|
| calibrateNumber.MizerParams |
Source code
|
| calibrate_to |
Man page
Source code
|
| capacity_from_resource_params |
Source code
|
| catchability |
Man page
Source code
|
| catchability.MizerParams |
Source code
|
| catchability<- |
Man page
|
| cdf_y_label |
Man page
Source code
|
| changed_entries |
Source code
|
| checkCustomFunctions |
Source code
|
| checkRequiredExtensionPackages |
Source code
|
| check_addPlot_compatible |
Source code
|
| check_and_convert_species_params |
Source code
|
| check_band_vars |
Man page
Source code
|
| check_f0 |
Source code
|
| check_finite |
Man page
Source code
|
| check_for_misspellings |
Source code
|
| check_gear_params |
Source code
|
| check_per_log_size |
Man page
Source code
|
| check_plot2_compatible |
Source code
|
| check_set_params_dots |
Source code
|
| check_species_params_misspellings |
Source code
|
| clear_validated_params |
Man page
Source code
|
| coerceToExtensionClass |
Man page
Source code
|
| collect_dimnames |
Man page
Source code
|
| column_length |
Source code
|
| compareColumns |
Source code
|
| compareParams |
Man page
Source code
|
| compareParams.MizerParams |
Source code
|
| compareSpeciesParams |
Source code
|
| compare_array_metadata |
Source code
|
| completeSpeciesParams |
Man page
|
| component_drift |
Source code
|
| component_drift_txt |
Source code
|
| component_groups |
Source code
|
| component_unmeasured_txt |
Source code
|
| compute_search_vol |
Source code
|
| constantEggRDI |
Man page
Source code
|
| constantRDD |
Man page
Source code
|
| constant_other |
Man page
Source code
|
| consumer_residual |
Source code
|
| convergence_result |
Source code
|
| convert_density_units |
Man page
Source code
|
| convert_plot_density_axis |
Man page
Source code
|
| convert_plot_size_axis |
Man page
Source code
|
| convert_plot_spectrum_axis |
Man page
Source code
|
| copyParamsComments |
Source code
|
| copyPreservedParamsSlots |
Source code
|
| copy_scan_attributes |
Man page
Source code
|
| curated_species_params_misspellings |
Source code
|
| customFunction |
Man page
Source code
|
| cutoff_min_w |
Man page
Source code
|
| deep_copy |
Source code
|
| default_info_level |
Man page
Source code
|
| default_pred_kernel_params |
Man page
Source code
|
| defaults_edition |
Man page
Source code
|
| density_measure_jacobian |
Man page
Source code
|
| density_measure_weight |
Man page
Source code
|
| density_measures |
Man page
|
| density_size_unit |
Man page
Source code
|
| density_target_measure |
Man page
Source code
|
| detect_limit_cycle |
Source code
|
| different |
Man page
Source code
|
| dim_extents |
Man page
Source code
|
| dim_from_labels |
Man page
Source code
|
| distanceMaxRelRDI |
Man page
Source code
|
| distanceMaxRelRDI.MizerParams |
Source code
|
| distanceSSLogN |
Man page
Source code
|
| distanceSSLogN.MizerParams |
Source code
|
| double_sigmoid_length |
Man page
Source code
|
| drop_nonpositive_limits |
Source code
|
| drop_nonpositive_values |
Source code
|
| dw |
Man page
Source code
|
| dw_full |
Man page
Source code
|
| emptyParams |
Man page
Source code
|
| empty_species_param_column |
Source code
|
| encounter_kernel |
Man page
Source code
|
| ensureExtensionNamespaces |
Man page
Source code
|
| entry_has_value |
Source code
|
| exact_column |
Source code
|
| expandSizeGrid |
Man page
Source code
|
| expandSizeGrid.MizerParams |
Man page
Source code
|
| expand_kernel_offsets |
Man page
Source code
|
| explicit_species_param_entries |
Source code
|
| ext_diffusion |
Man page
Source code
|
| ext_diffusion<- |
Man page
|
| ext_encounter |
Man page
Source code
|
| ext_encounter.MizerParams |
Source code
|
| ext_encounter<- |
Man page
|
| ext_mort |
Man page
Source code
|
| ext_mort.MizerParams |
Source code
|
| ext_mort<- |
Man page
|
| extensionRequirements |
Man page
Source code
|
| extensionVersion |
Man page
Source code
|
| extensionVersions |
Man page
Source code
|
| extension_needs_upgrading |
Man page
Source code
|
| fd_step_scale |
Source code
|
| fill_length_weight_params |
Source code
|
| filter_plot_length_limits |
Man page
Source code
|
| finalN |
Man page
Source code
|
| finalN.MizerSim |
Source code
|
| finalNOther |
Man page
Source code
|
| finalNResource |
Man page
Source code
|
| finalNResource.MizerSim |
Source code
|
| finalParams |
Man page
Source code
|
| finalParams.MizerSim |
Source code
|
| findSteadyState |
Man page
Source code
|
| findSteadyState.MizerParams |
Source code
|
| find_first_acf_peak |
Source code
|
| find_steady_newton |
Source code
|
| finish_newton |
Source code
|
| fit_log_spaced_k |
Source code
|
| flux_from_rates |
Man page
Source code
|
| flux_limiter_chi |
Source code
|
| flux_limiter_scheme |
Source code
|
| flux_units |
Man page
Source code
|
| format_size_range_detail |
Source code
|
| format_time_range_detail |
Source code
|
| format_truncation_note |
Source code
|
| freeRateContributions |
Source code
|
| free_gear_name |
Man page
Source code
|
| frozen_rate_params |
Man page
Source code
|
| gaussian_mixture_pred_kernel |
Man page
Source code
|
| gear_names |
Man page
Source code
|
| gear_params |
Man page
Source code
|
| gear_params.MizerParams |
Man page
Source code
|
| gear_params.MizerSim |
Man page
Source code
|
| gear_params.data.frame |
Man page
Source code
|
| gear_params.gear_params |
Man page
Source code
|
| gear_params<- |
Man page
|
| gear_params<-.MizerParams |
Man page
|
| getBiomass |
Man page
Source code
|
| getBiomass.MizerParams |
Source code
|
| getBiomass.MizerSim |
Source code
|
| getCatchability |
Man page
|
| getColours |
Man page
Source code
|
| getColours.MizerParams |
Source code
|
| getCommunitySlope |
Man page
Source code
|
| getCommunitySlope.MizerParams |
Source code
|
| getCommunitySlope.MizerSim |
Source code
|
| getComponent |
Man page
Source code
|
| getCriticalFeedingLevel |
Man page
Source code
|
| getCriticalFeedingLevel.MizerParams |
Source code
|
| getDiet |
Man page
Source code
|
| getDiet.MizerParams |
Source code
|
| getDiet.MizerSim |
Source code
|
| getDiffusion |
Man page
Source code
|
| getDiffusion.MizerParams |
Source code
|
| getDiffusion.MizerSim |
Source code
|
| getDiscreteStability |
Man page
Source code
|
| getEGrowth |
Man page
Source code
|
| getEGrowth.MizerParams |
Source code
|
| getEGrowth.MizerSim |
Source code
|
| getERepro |
Man page
Source code
|
| getERepro.MizerParams |
Source code
|
| getERepro.MizerSim |
Source code
|
| getEReproAndGrowth |
Man page
Source code
|
| getEReproAndGrowth.MizerParams |
Source code
|
| getEReproAndGrowth.MizerSim |
Source code
|
| getESpawning |
Man page
|
| getEffort |
Man page
Source code
|
| getEffort.MizerSim |
Source code
|
| getEncounter |
Man page
Source code
|
| getEncounter.MizerParams |
Source code
|
| getEncounter.MizerSim |
Source code
|
| getExtEncounter |
Man page
|
| getExtMort |
Man page
|
| getFMort |
Man page
Source code
|
| getFMort.MizerParams |
Source code
|
| getFMort.MizerSim |
Source code
|
| getFMortGear |
Man page
Source code
|
| getFMortGear.MizerParams |
Source code
|
| getFMortGear.MizerSim |
Source code
|
| getFeedingLevel |
Man page
Source code
|
| getFeedingLevel.MizerParams |
Source code
|
| getFeedingLevel.MizerSim |
Source code
|
| getFlux |
Man page
Source code
|
| getFlux.MizerParams |
Man page
Source code
|
| getFlux.MizerSim |
Man page
Source code
|
| getFluxGradient |
Man page
Source code
|
| getFluxGradient.MizerParams |
Man page
Source code
|
| getFluxGradient.MizerSim |
Man page
Source code
|
| getGrowthCurves |
Man page
Source code
|
| getGrowthCurves.MizerParams |
Source code
|
| getGrowthCurves.MizerSim |
Source code
|
| getInitialEffort |
Man page
|
| getInteraction |
Man page
|
| getLinetypes |
Man page
Source code
|
| getLinetypes.MizerParams |
Source code
|
| getM2 |
Man page
|
| getM2Background |
Man page
|
| getMaturityProportion |
Man page
|
| getMaxIntakeRate |
Man page
|
| getMeanLength |
Man page
Source code
|
| getMeanLength.MizerParams |
Source code
|
| getMeanLength.MizerSim |
Source code
|
| getMeanMaxWeight |
Man page
Source code
|
| getMeanMaxWeight.MizerParams |
Source code
|
| getMeanMaxWeight.MizerSim |
Source code
|
| getMeanWeight |
Man page
Source code
|
| getMeanWeight.MizerParams |
Source code
|
| getMeanWeight.MizerSim |
Source code
|
| getMetabolicRate |
Man page
|
| getMetadata |
Man page
Source code
|
| getMetadata.MizerParams |
Source code
|
| getMort |
Man page
Source code
|
| getMort.MizerParams |
Source code
|
| getMort.MizerSim |
Source code
|
| getN |
Man page
Source code
|
| getN.MizerParams |
Source code
|
| getN.MizerSim |
Source code
|
| getOscillationModeSim |
Man page
Source code
|
| getParams |
Man page
Source code
|
| getParams.MizerSim |
Source code
|
| getPhiPrey |
Man page
Source code
|
| getPredKernel |
Man page
|
| getPredMort |
Man page
Source code
|
| getPredMort.MizerParams |
Source code
|
| getPredMort.MizerSim |
Source code
|
| getPredRate |
Man page
Source code
|
| getPredRate.MizerParams |
Source code
|
| getPredRate.MizerSim |
Source code
|
| getPreservedParamsClass |
Source code
|
| getProportionOfLargeFish |
Man page
Source code
|
| getProportionOfLargeFish.MizerParams |
Source code
|
| getProportionOfLargeFish.MizerSim |
Source code
|
| getRDD |
Man page
Source code
|
| getRDD.MizerParams |
Source code
|
| getRDD.MizerSim |
Source code
|
| getRDI |
Man page
Source code
|
| getRDI.MizerParams |
Source code
|
| getRDI.MizerSim |
Source code
|
| getRateFunction |
Man page
Source code
|
| getRates |
Man page
Source code
|
| getRates.MizerParams |
Source code
|
| getReproductionLevel |
Man page
|
| getReproductionProportion |
Man page
|
| getRequiredRDD |
Man page
Source code
|
| getRequiredRDD.MizerParams |
Source code
|
| getResourceCapacity |
Man page
|
| getResourceDynamics |
Man page
|
| getResourceLevel |
Man page
|
| getResourceMort |
Man page
Source code
|
| getResourceMort.MizerParams |
Source code
|
| getResourceRate |
Man page
|
| getSSB |
Man page
Source code
|
| getSSB.MizerParams |
Source code
|
| getSSB.MizerSim |
Source code
|
| getSearchVolume |
Man page
|
| getSelectivity |
Man page
|
| getSimParams |
Man page
Source code
|
| getSimParams.MizerSim |
Source code
|
| getStability |
Man page
Source code
|
| getSteadyResidual |
Man page
Source code
|
| getTimes |
Man page
Source code
|
| getTimes.MizerSim |
Source code
|
| getTrophicLevel |
Man page
Source code
|
| getTrophicLevel.MizerParams |
Source code
|
| getTrophicLevelBySpecies |
Man page
Source code
|
| getTrophicLevelBySpecies.MizerParams |
Source code
|
| getYield |
Man page
Source code
|
| getYield.MizerParams |
Source code
|
| getYield.MizerSim |
Source code
|
| getYieldGear |
Man page
Source code
|
| getYieldGear.MizerParams |
Source code
|
| getYieldGear.MizerSim |
Source code
|
| getZ |
Man page
|
| get_ArrayResourceBySize_w |
Man page
Source code
|
| get_ArraySpeciesBySize_w |
Man page
Source code
|
| get_ArrayTimeBySpeciesBySize_w |
Man page
Source code
|
| get_f0_default |
Man page
|
| get_gamma_default |
Man page
|
| get_h_default |
Man page
|
| get_initial_n |
Man page
Source code
|
| get_ks_default |
Man page
|
| get_phi |
Man page
Source code
|
| get_power_law_mort |
Source code
|
| get_sim_rate_slice |
Man page
Source code
|
| get_sim_rate_time_elements |
Man page
Source code
|
| get_size_range_array |
Man page
Source code
|
| get_species_size_rate_from_sim |
Man page
Source code
|
| get_species_time_rate_from_sim |
Man page
Source code
|
| get_steady_state_n |
Man page
Source code
|
| get_time_elements |
Man page
Source code
|
| get_transport_coefs |
Source code
|
| get_transport_coefs_logfv |
Source code
|
| get_transport_coefs_upwind |
Source code
|
| get_w_min_idx |
Source code
|
| get_yield_observed |
Man page
Source code
|
| given_species_params |
Man page
Source code
|
| given_species_params.MizerParams |
Man page
Source code
|
| given_species_params.MizerSim |
Man page
Source code
|
| given_species_params.data.frame |
Man page
Source code
|
| given_species_params.given_species_params |
Man page
Source code
|
| given_species_params<- |
Man page
|
| given_species_params<-.MizerParams |
Man page
|
| idxFinalT |
Man page
Source code
|
| idxFinalT.MizerSim |
Source code
|
| indicator_functions |
Man page
|
| initialN |
Man page
Source code
|
| initialN.MizerParams |
Man page
Source code
|
| initialN.MizerSim |
Man page
Source code
|
| initialN<- |
Man page
|
| initialNOther |
Man page
Source code
|
| initialNOther<- |
Man page
|
| initialNResource |
Man page
Source code
|
| initialNResource.MizerParams |
Man page
Source code
|
| initialNResource.MizerSim |
Man page
Source code
|
| initialNResource<- |
Man page
|
| initialParams |
Man page
Source code
|
| initial_effort |
Man page
Source code
|
| initial_effort<- |
Man page
|
| inner_project_loop |
Source code
|
| install_tmp_gear |
Man page
Source code
|
| intake_max |
Man page
Source code
|
| intake_max.MizerParams |
Source code
|
| intake_max<- |
Man page
|
| inter |
Man page
|
| interaction_matrix |
Man page
Source code
|
| interaction_matrix<- |
Man page
|
| interpolate_in_log_size |
Man page
Source code
|
| interpolate_relative_frames |
Man page
Source code
|
| is.ArrayResourceBySize |
Man page
Source code
|
| is.ArraySpeciesBySize |
Man page
Source code
|
| is.ArrayTimeByResourceBySize |
Man page
Source code
|
| is.ArrayTimeBySpecies |
Man page
Source code
|
| is.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| is.MizerScan |
Man page
Source code
|
| is.gear_params |
Man page
Source code
|
| is.given_species_params |
Man page
Source code
|
| is.species_params |
Man page
Source code
|
| isSteady |
Man page
Source code
|
| isSteady.MizerParams |
Man page
Source code
|
| isVersionRequirement |
Man page
Source code
|
| is_custom |
Source code
|
| is_validated |
Man page
Source code
|
| knife_edge |
Man page
Source code
|
| knife_edge_length |
Man page
Source code
|
| known_species_params_columns |
Source code
|
| l2w |
Man page
Source code
|
| label_units |
Source code
|
| label_with_units |
Man page
Source code
|
| length_at_size |
Man page
Source code
|
| length_weight_mappings |
Source code
|
| log_breaks |
Man page
Source code
|
| log_dx |
Source code
|
| lognormal_pred_kernel |
Man page
Source code
|
| makeExtensions |
Man page
Source code
|
| make_linesize |
Man page
Source code
|
| make_mizer_plot |
Man page
Source code
|
| markBackground |
Man page
Source code
|
| matchBiomasses |
Man page
Source code
|
| matchBiomasses.MizerParams |
Source code
|
| matchGrowth |
Man page
Source code
|
| matchGrowth.MizerParams |
Source code
|
| matchNumbers |
Man page
Source code
|
| matchNumbers.MizerParams |
Source code
|
| match_to |
Man page
Source code
|
| matrix_display_width |
Source code
|
| maturity |
Man page
Source code
|
| maturity.MizerParams |
Source code
|
| maturity<- |
Man page
|
| measure_on_attractor |
Man page
Source code
|
| melt |
Man page
|
| merge_dim_labels |
Man page
Source code
|
| merge_given_species_params |
Source code
|
| metab |
Man page
Source code
|
| metab.MizerParams |
Source code
|
| metab<- |
Man page
|
| minor_version |
Source code
|
| mizer |
Man page
|
| mizer-package |
Man page
|
| mizerDiffusion |
Man page
|
| mizerEGrowth |
Man page
|
| mizerERepro |
Man page
|
| mizerEReproAndGrowth |
Man page
|
| mizerEncounter |
Man page
|
| mizerFMort |
Man page
|
| mizerFMortGear |
Man page
Source code
|
| mizerFeedingLevel |
Man page
|
| mizerMort |
Man page
|
| mizerPredMort |
Man page
|
| mizerPredRate |
Man page
|
| mizerRDI |
Man page
|
| mizerRates |
Man page
Source code
|
| mizerResourceMort |
Man page
|
| mizer_needs_upgrading |
Man page
Source code
|
| mizer_rates_subset |
Man page
Source code
|
| mizer_tooltip_vars |
Man page
Source code
|
| model_observation |
Man page
Source code
|
| needed_rates |
Man page
Source code
|
| needs_species_recalculation |
Source code
|
| needs_upgrading |
Man page
Source code
|
| negligible_cells |
Source code
|
| newCommunityParams |
Man page
Source code
|
| newMultispeciesParams |
Man page
Source code
|
| newSingleSpeciesParams |
Man page
Source code
|
| newTraitParams |
Man page
Source code
|
| newton_steady_state |
Source code
|
| noRDD |
Man page
Source code
|
| normalise_project_method |
Source code
|
| objectExtensions |
Man page
Source code
|
| observation_columns |
Man page
Source code
|
| other_encounter |
Man page
Source code
|
| other_encounter<- |
Man page
|
| other_mort |
Man page
Source code
|
| other_mort<- |
Man page
|
| other_params |
Man page
Source code
|
| other_params<- |
Man page
|
| overridden_species_params |
Source code
|
| params_as_sim |
Man page
Source code
|
| parsePlotLog |
Man page
Source code
|
| parse_numeric_labels |
Source code
|
| pick_head_indices |
Source code
|
| pick_log_spaced_indices |
Source code
|
| plot |
Man page
|
| plot.ArrayResourceBySize |
Man page
Source code
|
| plot.ArraySpeciesBySize |
Man page
Source code
|
| plot.ArrayTimeByResourceBySize |
Man page
Source code
|
| plot.ArrayTimeBySpecies |
Man page
Source code
|
| plot.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| plot.MizerParams |
Man page
Source code
|
| plot.MizerScan |
Man page
Source code
|
| plot.MizerSim |
Man page
Source code
|
| plot2 |
Man page
Source code
|
| plot2.ArrayResourceBySize |
Man page
Source code
|
| plot2.ArraySpeciesBySize |
Man page
Source code
|
| plot2.ArrayTimeByResourceBySize |
Man page
Source code
|
| plot2.ArrayTimeBySpecies |
Man page
Source code
|
| plot2.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| plotBiomass |
Man page
Source code
|
| plotBiomass.MizerSim |
Man page
Source code
|
| plotBiomassObservedVsModel |
Man page
Source code
|
| plotBiomassObservedVsModel.MizerParams |
Source code
|
| plotBiomassObservedVsModel.MizerSim |
Source code
|
| plotCDF |
Man page
Source code
|
| plotCDF.MizerParams |
Man page
Source code
|
| plotCDF.MizerSim |
Man page
Source code
|
| plotCDF2 |
Man page
Source code
|
| plotComparisonDataFrame |
Man page
Source code
|
| plotDataFrame |
Man page
Source code
|
| plotDiet |
Man page
Source code
|
| plotDiet.MizerParams |
Man page
Source code
|
| plotDiet.MizerSim |
Man page
Source code
|
| plotFMort |
Man page
Source code
|
| plotFMort.MizerParams |
Man page
Source code
|
| plotFMort.MizerSim |
Man page
Source code
|
| plotFeedingLevel |
Man page
Source code
|
| plotFeedingLevel.MizerParams |
Man page
Source code
|
| plotFeedingLevel.MizerSim |
Man page
Source code
|
| plotGrowthCurves |
Man page
Source code
|
| plotGrowthCurves.MizerParams |
Man page
Source code
|
| plotGrowthCurves.MizerSim |
Man page
Source code
|
| plotHover |
Man page
Source code
|
| plotHover.ArrayResourceBySize |
Man page
Source code
|
| plotHover.ArraySpeciesBySize |
Man page
Source code
|
| plotHover.ArrayTimeByResourceBySize |
Man page
Source code
|
| plotHover.ArrayTimeBySpecies |
Man page
Source code
|
| plotHover.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| plotHover.MizerScan |
Man page
Source code
|
| plotHover.mizer_plot |
Man page
Source code
|
| plotM2 |
Man page
|
| plotMizerParams |
Man page
|
| plotMizerSim |
Man page
|
| plotPredMort |
Man page
Source code
|
| plotPredMort.MizerParams |
Man page
Source code
|
| plotPredMort.MizerSim |
Man page
Source code
|
| plotRelative |
Man page
Source code
|
| plotRelative.ArrayResourceBySize |
Man page
Source code
|
| plotRelative.ArraySpeciesBySize |
Man page
Source code
|
| plotRelative.ArrayTimeByResourceBySize |
Man page
Source code
|
| plotRelative.ArrayTimeBySpecies |
Man page
Source code
|
| plotRelative.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| plotRelativeDataFrame |
Man page
Source code
|
| plotSpectra |
Man page
Source code
|
| plotSpectra.MizerParams |
Man page
Source code
|
| plotSpectra.MizerSim |
Man page
Source code
|
| plotSpectra2 |
Man page
Source code
|
| plotSpectraRelative |
Man page
Source code
|
| plotYield |
Man page
Source code
|
| plotYield.MizerSim |
Man page
Source code
|
| plotYieldGear |
Man page
Source code
|
| plotYieldGear.MizerSim |
Man page
Source code
|
| plotYieldObservedVsModel |
Man page
Source code
|
| plotYieldObservedVsModel.MizerParams |
Source code
|
| plotYieldObservedVsModel.MizerSim |
Source code
|
| plotYieldVsF |
Man page
Source code
|
| plot_cdf |
Man page
Source code
|
| plot_diet |
Man page
Source code
|
| plot_feeding_level |
Man page
Source code
|
| plot_growth_curves |
Man page
Source code
|
| plot_length_params |
Man page
Source code
|
| plot_mapping_var |
Source code
|
| plot_size_axis |
Man page
Source code
|
| plot_size_tooltip |
Man page
Source code
|
| plot_size_x_var |
Man page
Source code
|
| plot_size_xlab |
Man page
Source code
|
| plot_size_xlim |
Man page
Source code
|
| plot_spectra |
Man page
Source code
|
| plot_y_is_log |
Man page
Source code
|
| plot_y_units |
Source code
|
| plotlyBiomass |
Man page
Source code
|
| plotlyBiomassObservedVsModel |
Man page
Source code
|
| plotlyCDF |
Man page
Source code
|
| plotlyCDF2 |
Man page
Source code
|
| plotlyDiet |
Man page
Source code
|
| plotlyFMort |
Man page
Source code
|
| plotlyFeedingLevel |
Man page
Source code
|
| plotlyGrowthCurves |
Man page
Source code
|
| plotlyPredMort |
Man page
Source code
|
| plotlySpectra |
Man page
Source code
|
| plotlySpectra2 |
Man page
Source code
|
| plotlySpectraRelative |
Man page
Source code
|
| plotlyYield |
Man page
Source code
|
| plotlyYieldGear |
Man page
Source code
|
| plotlyYieldObservedVsModel |
Man page
Source code
|
| plotly_axis |
Source code
|
| plotly_axis_range |
Source code
|
| plotting_functions |
Man page
|
| positive_initial_guess |
Source code
|
| power_law_bin_average |
Man page
Source code
|
| power_law_pred_kernel |
Man page
Source code
|
| pred_kernel |
Man page
Source code
|
| pred_kernel.MizerParams |
Source code
|
| pred_kernel<- |
Man page
|
| prepare_ArrayResourceBySize_plot_data |
Source code
|
| prepare_ArraySpeciesBySize_plot_data |
Source code
|
| prepare_ArrayTimeBySpecies_plot_data |
Man page
Source code
|
| prepare_MizerScan_plot_data |
Man page
Source code
|
| prepare_spectra_cdf_data |
Man page
Source code
|
| print |
Man page
|
| print.ArrayResourceBySize |
Source code
|
| print.ArraySpeciesBySize |
Man page
Source code
|
| print.ArrayTimeByResourceBySize |
Source code
|
| print.ArrayTimeBySpecies |
Man page
Source code
|
| print.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| print.MizerScan |
Source code
|
| print.gear_params |
Source code
|
| print.mizer_plot |
Man page
Source code
|
| print.species_params |
Source code
|
| print.summary.ArrayResourceBySize |
Source code
|
| print.summary.ArraySpeciesBySize |
Man page
Source code
|
| print.summary.ArrayTimeByResourceBySize |
Source code
|
| print.summary.ArrayTimeBySpecies |
Man page
Source code
|
| print.summary.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| print.summary.MizerScan |
Source code
|
| print_ArraySpeciesBySize_body |
Source code
|
| project |
Man page
Source code
|
| project.MizerParams |
Man page
Source code
|
| project.MizerSim |
Man page
Source code
|
| projectDiffusion |
Man page
Source code
|
| projectDiffusion.MizerParams |
Man page
Source code
|
| projectEGrowth |
Man page
Source code
|
| projectEGrowth.MizerParams |
Man page
Source code
|
| projectERepro |
Man page
Source code
|
| projectERepro.MizerParams |
Man page
Source code
|
| projectEReproAndGrowth |
Man page
Source code
|
| projectEReproAndGrowth.MizerParams |
Man page
Source code
|
| projectEncounter |
Man page
Source code
|
| projectEncounter.MizerParams |
Man page
Source code
|
| projectFMort |
Man page
Source code
|
| projectFMort.MizerParams |
Man page
Source code
|
| projectFeedingLevel |
Man page
Source code
|
| projectFeedingLevel.MizerParams |
Man page
Source code
|
| projectMort |
Man page
Source code
|
| projectMort.MizerParams |
Man page
Source code
|
| projectPredMort |
Man page
Source code
|
| projectPredMort.MizerParams |
Man page
Source code
|
| projectPredRate |
Man page
Source code
|
| projectPredRate.MizerParams |
Man page
Source code
|
| projectRDD |
Man page
Source code
|
| projectRDD.MizerParams |
Man page
Source code
|
| projectRDI |
Man page
Source code
|
| projectRDI.MizerParams |
Man page
Source code
|
| projectRateFunctions |
Source code
|
| projectRates |
Man page
Source code
|
| projectRates.MizerParams |
Source code
|
| projectResourceMort |
Man page
Source code
|
| projectResourceMort.MizerParams |
Man page
Source code
|
| projectToSteady |
Man page
Source code
|
| projectToSteady.MizerParams |
Source code
|
| projectUntilSettled |
Man page
Source code
|
| projectUntilSettled.MizerParams |
Source code
|
| project_n |
Man page
Source code
|
| project_n_2 |
Man page
Source code
|
| project_n_2_rhs |
Source code
|
| project_n_loop |
Source code
|
| project_n_no_diffusion |
Man page
Source code
|
| project_n_tr_bdf2 |
Man page
Source code
|
| project_n_tr_bdf2_rhs |
Source code
|
| project_simple |
Man page
Source code
|
| project_simple.MizerParams |
Source code
|
| project_until_settled |
Source code
|
| proportion_ylim |
Man page
Source code
|
| psi |
Man page
Source code
|
| range_stat |
Source code
|
| rate_from_resource_params |
Source code
|
| readParams |
Man page
Source code
|
| readSim |
Man page
Source code
|
| rebalance_resource |
Source code
|
| rebuild_from_given |
Source code
|
| recalculation_species_params |
Source code
|
| reconcileSpeciesParams |
Man page
Source code
|
| reconcile_length_weight |
Source code
|
| recordExtension |
Man page
Source code
|
| record_given_species_params |
Man page
Source code
|
| record_unreproduced_species_params |
Source code
|
| record_validated |
Man page
Source code
|
| reexports |
Man page
|
| reinstateParamsClass |
Source code
|
| relative_difference |
Man page
Source code
|
| removeBackgroundSpecies |
Man page
Source code
|
| removeComponent |
Man page
Source code
|
| removeSpecies |
Man page
Source code
|
| removeSpecies.MizerParams |
Source code
|
| renameGear |
Man page
Source code
|
| renameGear.MizerParams |
Source code
|
| renameSpecies |
Man page
Source code
|
| renameSpecies.MizerParams |
Source code
|
| repair_params |
Man page
Source code
|
| report_scan_convergence |
Man page
Source code
|
| repro_prop |
Man page
Source code
|
| repro_prop.MizerParams |
Source code
|
| repro_prop<- |
Man page
|
| reproduction_level |
Man page
Source code
|
| reproduction_level.MizerParams |
Source code
|
| reproduction_level<- |
Man page
|
| requiredExtensionPackages |
Source code
|
| resolve_array_type |
Man page
Source code
|
| resolve_cdf_power |
Man page
Source code
|
| resolve_second_order_w |
Man page
Source code
|
| resolve_spectrum_power |
Man page
Source code
|
| resource_capacity |
Man page
Source code
|
| resource_capacity<- |
Man page
|
| resource_constant |
Man page
Source code
|
| resource_dynamics |
Man page
Source code
|
| resource_dynamics<- |
Man page
|
| resource_length_defaults |
Man page
|
| resource_length_params |
Man page
Source code
|
| resource_level |
Man page
Source code
|
| resource_level<- |
Man page
|
| resource_logistic |
Man page
Source code
|
| resource_params |
Man page
Source code
|
| resource_params<- |
Man page
|
| resource_power_law |
Man page
Source code
|
| resource_rate |
Man page
Source code
|
| resource_rate<- |
Man page
|
| resource_semichemostat |
Man page
Source code
|
| resource_steady_semichemostat |
Source code
|
| restoreParamsClass |
Source code
|
| restore_length_weight_params |
Source code
|
| restore_reproduction |
Source code
|
| runExtensionUpgrades |
Man page
Source code
|
| saveParams |
Man page
Source code
|
| saveParams.MizerParams |
Source code
|
| saveSim |
Man page
Source code
|
| saveSim.MizerSim |
Source code
|
| scaleModel |
Man page
Source code
|
| scaleModel.MizerParams |
Source code
|
| scaleRates |
Man page
Source code
|
| scaleRates.MizerParams |
Source code
|
| scanEffort |
Man page
Source code
|
| scanFishingMortality |
Man page
Source code
|
| scanModel |
Man page
Source code
|
| scanModel.MizerParams |
Source code
|
| scanSpeciesParam |
Man page
Source code
|
| scan_gear_installed |
Man page
Source code
|
| scan_plot_params |
Man page
Source code
|
| scan_x_label |
Man page
Source code
|
| scan_x_var |
Man page
Source code
|
| scan_y_label |
Man page
Source code
|
| scan_y_var |
Man page
Source code
|
| search_vol |
Man page
Source code
|
| search_vol.MizerParams |
Source code
|
| search_vol<- |
Man page
|
| second_order_w |
Man page
Source code
|
| second_order_w<- |
Man page
|
| select_gear_rows |
Man page
Source code
|
| select_scan_series |
Man page
Source code
|
| selectivity |
Man page
Source code
|
| selectivity.MizerParams |
Source code
|
| selectivity<- |
Man page
|
| setBevertonHolt |
Man page
Source code
|
| setBevertonHolt.MizerParams |
Source code
|
| setColours |
Man page
Source code
|
| setColours.MizerParams |
Source code
|
| setComponent |
Man page
Source code
|
| setExtDiffusion |
Man page
Source code
|
| setExtDiffusion.MizerParams |
Man page
Source code
|
| setExtEncounter |
Man page
Source code
|
| setExtEncounter.MizerParams |
Source code
|
| setExtMort |
Man page
Source code
|
| setExtMort.MizerParams |
Source code
|
| setFishing |
Man page
Source code
|
| setFishing.MizerParams |
Source code
|
| setInitialValues |
Man page
Source code
|
| setInitialValues.MizerParams |
Source code
|
| setInteraction |
Man page
Source code
|
| setInteraction.MizerParams |
Source code
|
| setLinetypes |
Man page
Source code
|
| setLinetypes.MizerParams |
Source code
|
| setMaxIntakeRate |
Man page
Source code
|
| setMaxIntakeRate.MizerParams |
Source code
|
| setMetabolicRate |
Man page
Source code
|
| setMetabolicRate.MizerParams |
Source code
|
| setMetadata |
Man page
Source code
|
| setMetadata.MizerParams |
Source code
|
| setParams |
Man page
Source code
|
| setParams.MizerParams |
Source code
|
| setPredKernel |
Man page
Source code
|
| setPredKernel.MizerParams |
Source code
|
| setRateContributions |
Source code
|
| setRateFunction |
Man page
Source code
|
| setReproduction |
Man page
Source code
|
| setReproduction.MizerParams |
Source code
|
| setResource |
Man page
Source code
|
| setResource.MizerParams |
Source code
|
| setRmax |
Man page
|
| setSearchVolume |
Man page
Source code
|
| setSearchVolume.MizerParams |
Source code
|
| set_column |
Source code
|
| set_community_model |
Man page
Source code
|
| set_multispecies_model |
Man page
Source code
|
| set_params_arg_names |
Source code
|
| set_q_default |
Source code
|
| set_scan_maximum |
Man page
Source code
|
| set_species_param_default |
Man page
|
| set_species_param_from_length |
Source code
|
| set_trait_model |
Man page
Source code
|
| set_z0_default |
Source code
|
| setter_owned_species_params |
Source code
|
| shared_plot_args |
Source code
|
| sigmoid_length |
Man page
Source code
|
| sigmoid_weight |
Man page
Source code
|
| signal_defaulted_length_weight |
Man page
Source code
|
| signal_frozen |
Man page
Source code
|
| signal_frozen_changes |
Man page
Source code
|
| signal_gear_params_changes |
Man page
Source code
|
| signal_ignored_changes |
Man page
Source code
|
| signal_ignored_z0_args |
Source code
|
| signal_info |
Man page
Source code
|
| signal_not_recalculated |
Man page
Source code
|
| signal_off_steady |
Source code
|
| signal_removed_species_params |
Man page
Source code
|
| simExtensionClass |
Man page
Source code
|
| sim_size_rate |
Man page
Source code
|
| sim_species_rate |
Man page
Source code
|
| single_eigenvector |
Source code
|
| sizeIntegral |
Man page
Source code
|
| size_dim_labels |
Man page
Source code
|
| slot |
Man page
Source code
|
| slot<- |
Man page
|
| slotNames |
Man page
Source code
|
| species_param_changes |
Source code
|
| species_params |
Man page
Source code
|
| species_params.MizerParams |
Man page
Source code
|
| species_params.MizerSim |
Man page
Source code
|
| species_params.data.frame |
Man page
Source code
|
| species_params.species_params |
Man page
Source code
|
| species_params<- |
Man page
|
| species_params<-.MizerParams |
Man page
|
| species_size_range_mask |
Man page
Source code
|
| spectra_bin_width |
Man page
Source code
|
| spectra_y_label |
Man page
Source code
|
| spectrum_density_wrt |
Man page
Source code
|
| stability_context |
Source code
|
| stability_eigenvectors |
Source code
|
| stability_jacobian |
Source code
|
| stability_rhs |
Source code
|
| stability_step |
Source code
|
| stable_plotly_ids |
Source code
|
| state_rdd |
Source code
|
| steady |
Man page
Source code
|
| steady.MizerParams |
Source code
|
| steadySingleSpecies |
Man page
Source code
|
| steadySingleSpecies.MizerParams |
Source code
|
| steady_active_set |
Source code
|
| steady_attractor |
Source code
|
| steady_biomass_drift |
Source code
|
| steady_drift_report |
Source code
|
| steady_rates |
Source code
|
| steady_residual_tol |
Source code
|
| steady_share_cutoff |
Source code
|
| steady_state_residual |
Source code
|
| steady_total_drift |
Source code
|
| steady_variable_txt |
Source code
|
| str |
Man page
|
| str.ArrayResourceBySize |
Source code
|
| str.ArraySpeciesBySize |
Man page
Source code
|
| str.ArrayTimeByResourceBySize |
Source code
|
| str.ArrayTimeBySpecies |
Man page
Source code
|
| str.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| str.MizerParams |
Man page
Source code
|
| str.MizerScan |
Source code
|
| str.MizerSim |
Man page
Source code
|
| summariseArrayDiff |
Source code
|
| summary |
Man page
|
| summary.ArrayResourceBySize |
Source code
|
| summary.ArraySpeciesBySize |
Man page
Source code
|
| summary.ArrayTimeByResourceBySize |
Source code
|
| summary.ArrayTimeBySpecies |
Man page
Source code
|
| summary.ArrayTimeBySpeciesBySize |
Man page
Source code
|
| summary.MizerParams |
Man page
Source code
|
| summary.MizerScan |
Source code
|
| summary.MizerSim |
Man page
Source code
|
| summary.species_params |
Source code
|
| summary_functions |
Man page
|
| superseded_accessors |
Man page
|
| superseded_steady |
Man page
|
| support_top_idx |
Source code
|
| sweep_arms |
Man page
Source code
|
| sync_species_plot_column |
Source code
|
| thomas_solve |
Source code
|
| total_contributors |
Man page
Source code
|
| trapezoidal_bin_average |
Man page
Source code
|
| truncateSim |
Source code
|
| truncated_lognormal_pred_kernel |
Man page
Source code
|
| tuneSteadyState |
Man page
Source code
|
| tuneSteadyState.MizerParams |
Source code
|
| tune_steady_newton |
Source code
|
| tune_steady_project |
Source code
|
| unclass_rate |
Source code
|
| unclass_resource |
Source code
|
| unclass_time |
Source code
|
| unclass_tss |
Source code
|
| upgrade.MizerParams |
Man page
Source code
|
| upgrade.MizerSim |
Man page
Source code
|
| upgradeParams |
Man page
Source code
|
| upgradeSim |
Man page
Source code
|
| upgrade_s4_to_s3 |
Man page
Source code
|
| use_predation_diffusion |
Man page
Source code
|
| use_predation_diffusion<- |
Man page
|
| validColours |
Source code
|
| validEffortArray |
Source code
|
| validEffortVector |
Man page
Source code
|
| validGearParams |
Man page
Source code
|
| validGivenSpeciesParams |
Man page
Source code
|
| validLinetypes |
Source code
|
| validMizerParams |
Source code
|
| validObject |
Man page
Source code
|
| validParams |
Man page
Source code
|
| validParams.MizerParams |
Source code
|
| validSim |
Man page
Source code
|
| validSim.MizerSim |
Source code
|
| validSpeciesParams |
Man page
Source code
|
| valid_MizerSim |
Source code
|
| valid_gears_arg |
Man page
Source code
|
| valid_species_arg |
Man page
Source code
|
| validateExtensionsVector |
Man page
Source code
|
| validateParamsForSaving |
Source code
|
| validateSimForSaving |
Source code
|
| validate_array_type |
Man page
Source code
|
| validate_density_wrt |
Man page
Source code
|
| validate_second_order_w |
Man page
Source code
|
| validation_key |
Man page
Source code
|
| vector_display_width |
Source code
|
| w |
Man page
Source code
|
| w2l |
Man page
Source code
|
| w_full |
Man page
Source code
|
| warn_if_not_steady |
Source code
|
| warn_other_components_fixed |
Source code
|
| warn_unused_resource_args |
Source code
|
| with_info_level |
Man page
Source code
|
| zero_above_support |
Source code
|
