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StrathE2E2  

End-to-End Marine Food Web Model
View on CRAN: Click here


Download and install StrathE2E2 package within the R console
Install from CRAN:
install.packages("StrathE2E2")

Install from Github:
library("remotes")
install_github("cran/StrathE2E2")

Install by package version:
library("remotes")
install_version("StrathE2E2", "3.3.0")



Attach the package and use:
library("StrathE2E2")
Maintained by
Michael Heath
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-07-08
Latest Update: 2021-01-22
Description:
A dynamic model of the big-picture, whole ecosystem effects of hydrodynamics, temperature, nutrients, and fishing on continental shelf marine food webs. The package is described in: Heath, M.R., Speirs, D.C., Thurlbeck, I. and Wilson, R.J. (2020) <doi:10.1111/2041-210X.13510> StrathE2E2: An R package for modelling the dynamics of marine food webs and fisheries. 8pp.
How to cite:
Michael Heath (2020). StrathE2E2: End-to-End Marine Food Web Model. R package version 3.3.0, https://cran.r-project.org/web/packages/StrathE2E2. Accessed 22 Dec. 2024.
Previous versions and publish date:
3.1.0 (2020-07-08 11:40), 3.2.0 (2020-09-02 08:50)
Other packages that cited StrathE2E2 R package
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Other R packages that StrathE2E2 depends, imports, suggests or enhances
Complete documentation for StrathE2E2
Functions, R codes and Examples using the StrathE2E2 R package
Some associated functions: StrathE2E2-package . e2e_calculate_hrscale . e2e_compare_obs . e2e_compare_runs_bar . e2e_compare_runs_box . e2e_copy . e2e_extract_hr . e2e_extract_start . e2e_get_parmdoc . e2e_get_senscrit . e2e_ls . e2e_merge_sens_mc . e2e_optimize_act . e2e_optimize_eco . e2e_optimize_hr . e2e_plot_biomass . e2e_plot_catch . e2e_plot_eco . e2e_plot_edrivers . e2e_plot_fdrivers . e2e_plot_migration . e2e_plot_opt_diagnostics . e2e_plot_sens_mc . e2e_plot_trophic . e2e_plot_ts . e2e_plot_ycurve . e2e_process_sens_mc . e2e_read . e2e_run . e2e_run_mc . e2e_run_sens . e2e_run_ycurve . 
Some associated R codes: CredInt_make_aamass_results.R . CredInt_make_annual_flux_results.R . CredInt_make_daily_flux_results.R . CredInt_make_daily_migration_results.R . CredInt_make_daily_results.R . CredInt_make_monthly_results.R . CredInt_make_network_results.R . CredInt_make_parameter_results.R . CredInt_make_target_results.R . StrathE2E2.R . StrathE2E_fit.R . aggregate_model_output.R . assemble_flow_matrix_from_model_annual_output.R . boxplot_annual_compare_observations.R . boxplot_annual_compare_observations_with_ci.R . boxplot_annual_compare_runs.R . boxplot_monthly_compare_observations.R . boxplot_monthly_compare_observations_with_ci.R . boxplot_monthly_compare_runs.R . build_annual_drivers.R . build_initial_state.R . build_model.R . build_model_parameters.R . build_model_run.R . calculate_error_function.R . calculate_uptakes.R . compare_two_runs_aam.R . compare_two_runs_catch.R . concatenate_raw_mc_data_files.R . concatenate_raw_sensitivity_data_files.R . derive_annual_results_inshore.R . derive_annual_results_offshore.R . derive_annual_results_wholedomain.R . derive_model_target_results.R . disaggregate_landings_discards_by_gear.R . e2e_calculate_hrscale.R . e2e_compare_obs.R . e2e_compare_runs_bar.R . e2e_compare_runs_box.R . e2e_copy.R . e2e_extract_hr.R . e2e_extract_start.R . e2e_get_parmdoc.R . e2e_get_senscrit.R . e2e_ls.R . e2e_merge_sens_mc.R . e2e_optimize_act.R . e2e_optimize_eco.R . e2e_optimize_hr.R . e2e_plot_biomass.R . e2e_plot_catch.R . e2e_plot_eco.R . e2e_plot_edrivers.R . e2e_plot_fdrivers.R . e2e_plot_migration.R . e2e_plot_opt_diagnostics.R . e2e_plot_sens_mc.R . e2e_plot_trophic.R . e2e_plot_ts.R . e2e_plot_ycurve.R . e2e_process_sens_mc.R . e2e_read.R . e2e_run.R . e2e_run_mc.R . e2e_run_sens.R . e2e_run_ycurve.R . extract_final_year_of_run_plus_volumetric_data.R . extract_simulated_catch_land_disc_by_gear_for_given_year.R . extract_timeseries_annual_landings.R . fishing_fleet_model.R . generate_df_yield_curve_data.R . generate_pf_yield_curve_data.R . internal.R . interpolate_drivers.R . monthly_averages_of_final_year.R . optimize_activity_mult_eco.R . optimize_activity_mult_hr.R . perturb_parameters.R . perturb_parameters_all.R . plot_act_hr_optimization_diagnostics.R . plot_df_yield_curve.R . plot_eco_hr_act_eco_optimization_diagnostics.R . plot_final_year_migration_data.R . plot_final_year_migration_data_with_ci.R . plot_final_year_time_series_data.R . plot_final_year_time_series_data_with_ci.R . plot_final_year_trophic_data.R . plot_final_year_trophic_data_with_ci.R . plot_for_each_gear_catch_by_guild.R . plot_for_each_guild_catch_by_gear.R . plot_full_length_timeseries.R . plot_gear_activity_distribution.R . plot_gear_guild_discard_rates.R . plot_gear_guild_harvest_ratios.R . plot_gear_guild_offal_rates.R . plot_inshore_vs_offshore_anavmass.R . plot_inshore_vs_offshore_anavmass_with_ci.R . plot_mc_parameter_likelihoods.R . plot_pf_yield_curve.R . plot_seabed_abrasion_area_ratios.R . plot_sensitivity_results.R . plot_time_series_annual_land_disc.R . postprocess_mc_data.R . postprocess_sens_data.R . process_sensitivity_analysis_results.R . read_SD_credint.R . read_SD_ecology.R . read_SD_fishing.R . read_SD_sensitivity.R . read_annual_target_data.R . read_biological_event_timings.R . read_chemistry_drivers.R . read_fishing_fleet_model.R . read_fitted_parameters.R . read_fixed_parameters.R . read_initial_state.R . read_monthly_target_data.R . read_physical_parameters.R . read_physics_drivers.R . store_fleet_model_output.R . write_fitted_parameters.R .  Full StrathE2E2 package functions and examples
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