Man pages for mrc-ide/gf
Global fund malaria modelling
| add_target_use | Find nearest LLIN target use to match to NPC outputs |
| adjust_net_efficiency | After 2023, net distribution switches to the most efficient... |
| age_specific_coverage | Age specific coverage |
| annual_net_distibuted | Annual nets distributed |
| annual_net_distibuted_gts | Annual nets distributed |
| any_vc_coverage | Add coverage of either net or IRS. These are modelled as -ve... |
| approx_target_use | Linear interpolation for eq_npc use |
| back_adjust_iccm | Split out iccm coverage from treatment coverage |
| cases | Add clinical cases |
| case_weighting | Case weighting. |
| commodities_and_services | Commodity and service estimates |
| coverage_options | Create set of binary coverage options |
| create_coverage | Modify GP intervention data.frame for coverage options |
| create_intervention_option_matrix | Create matrix of coverage options |
| create_names | Create the replenishment naming scheme indicating which... |
| create_optimisation_data | Create dataset for optimisation |
| create_optim_matrices | Create optimisation matrices |
| daly_components | Add DALY components |
| dalys_cast_forward | Dalys case forward |
| deaths | Add deaths |
| dominant | Filter non-dominant solutions |
| dominant2 | Filter non-dominant solutions |
| elim_threshold | Elimination threshold |
| epi_post_processing | Epidemiological post processing |
| extend | Extend any inputs that do not span the full modelled time... |
| final_format | Final formatting |
| fixed_post | Continue coverage in post replenishment period |
| forward_adjust_iccm | Combine iccm coverage with treatment coverage |
| get_weighting | Get case weighting |
| gf_aggregate | Aggregate output |
| gf_countries | List of countries to model for the GF |
| gf_public | Proportion of treatment public sector |
| gf_select | Select output for GF |
| half_life | Half life net loss function |
| hh | Average HH size |
| interventions_rename | Rename interventions |
| life_years | Add Life years lived |
| link_data | Link simulation output with input data |
| model_output_to_long | Raw output to long |
| mortality_rate | Add mortality rate (dependent on severe case incidence and... |
| multi_optimisation | Run multiple optimisations |
| net_loss | Net loss function |
| non_malarial_fevers | Add non-malarial fevers (NMFs). |
| outcome_uncertainty | Add case and death uncertainty |
| par | Add age disaggregated population at risk |
| pipe | Pipe operator |
| population_indicators | Add some population-level indicators |
| population_projections | Population projections |
| ppf | Proportion pf |
| process_raw | Raw output pre-processing wrapper |
| proportion_overlap | Proportion overlap |
| prune | Keep only required columns - helps for memory issues with... |
| render_report | Create country summary report |
| replace_missing | Replaces -999 values in outputs |
| replenishment_options | Make replenishment options |
| severe_cases | Add severe cases |
| single_optimisation | Perform optimisation for a single budget line |
| tidyeval | Tidy eval helpers |
| treatment_unit_costs | Treatment unit costs |
| unit_costs | Unit costs |
| use_npc | Use to npc |
| who_burden | WHO burden estimates (callibrated to) |
| year_summary | Isolate annual summary |
| yll_cast_forward | Sum of deaths in last "lifetime left" years |
