Man pages for andybeet/hydramse
Performs MSE using Hydra
| cleanup_admb | Cleans up environment after ADMB calls |
| create_effort_folder_setup | create folders structure to hold model output. |
| create_folder_setup | create folders structure to hold model output. |
| darwin | Darwinian simulation study |
| darwinData | Data used to constrain Darwin model runs within historic... |
| darwinRules | Data rules used in Darwin simulation study |
| file_to_Rlist | Reads output from a single Hydra into an R list |
| hydramse | hydramse: Implementation of MSE process |
| lengthen_hydra_data | lengthen hydra data for additional years |
| plot_box_whiskers | creates box whisker plots |
| plot_darwin_output | plot output from darwin simulation runs |
| plot_line_median_sd | creates Line plots of median value with se |
| plot_production_function_guild | plots production functions |
| plot_radar_scenarios | creates Radar plots for scenario comparison |
| plot_stock_recruit | Plots Stock recruitment model |
| plot_time_series | Plots times eries data |
| process_darwin_output | processes output from Darwin run |
| process_model_runs | Process model runs |
| process_single_scenario | Process all runs for a given scenario |
| rule1_biomass | Assess if model passes 1st biomass rule |
| rule2_biomass | Assess if model passes 2nd biomass rule. |
| rule3_landings | Assess if model passes catch rule. |
| run_single_hydra | Executes Hydra ADMB code |
| simulate_parameters | simulate all unknowns in the MSE |
| timeSeries | Time Series data used to constrain Darwin model runs within... |
| update_hydra_data | update base Hydra data |
| write_rds_to_excel | Write RDS files to excel |
