Files in LorenzoCattarino/priorityeffort
Prioritization of conservation management effort.
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE.txt
NAMESPACE
R/calculate_OF.R
R/count_persistence.R
R/create_exp_design.R
R/functions_for_uncertainty_analysis.R
R/hello.R
R/one_run.R
R/optimize_actions.R
R/plot_change_from_target_exp_1.R
R/plot_change_from_target_exp_2.R
R/plot_effort_map.R
R/plot_representation_error_exp_1.R
R/plot_representation_error_exp_2.R
R/plot_species_proportions_exp_1.R
R/plot_species_proportions_exp_2.R
R/plot_trackers.R
R/post_processing_functions.R
R/pre_processing_functions.R
R/utility_functions.r
README.md
analysis/1_run_prioritization_exp_1.R
analysis/2_post_processing_exp_1.R
analysis/3_post_processing_exp_1.R
analysis/4_post_processing_exp_1.R
analysis/5_run_prioritization_exp_2.R
analysis/6_post_processing_exp_2.R
analysis/7_post_processing_exp_2.R
analysis/Supp_Info_FIG_1.R
analysis/Supp_Info_FIG_3.R
data-raw/1_process_shepfiles.R
data-raw/2_create_site_threat_array.R
data-raw/3_create_site_species_&_cons_features_arrays.R
data-raw/4_create_planning_unit_and_treated_area_arrays.R
data-raw/5_create_species_response_array.R
data-raw/Eco_group_lookup.txt
data-raw/Eco_group_lookup.xlsx
data-raw/individual_expert_responses.xlsx
data-raw/shapefiles/Catch_500.dbf
data-raw/shapefiles/Catch_500.sbn
data-raw/shapefiles/Catch_500.sbx
data-raw/shapefiles/Catch_500.shp
data-raw/shapefiles/Catch_500.shp.xml
data-raw/shapefiles/Catch_500.shx
data-raw/shapefiles/River_500.dbf
data-raw/shapefiles/River_500.shp
data-raw/shapefiles/River_500.shp.xml
data-raw/shapefiles/River_500.shx
data-raw/shapefiles/australia_outline.dbf
data-raw/shapefiles/australia_outline.sbn
data-raw/shapefiles/australia_outline.sbx
data-raw/shapefiles/australia_outline.shp
data-raw/shapefiles/australia_outline.shp.xml
data-raw/shapefiles/australia_outline.shx
data-raw/shapefiles/species/Birds_Daly_final_agg.dbf
data-raw/shapefiles/species/Birds_Daly_final_agg.prj
data-raw/shapefiles/species/Birds_Daly_final_agg.sbn
data-raw/shapefiles/species/Birds_Daly_final_agg.sbx
data-raw/shapefiles/species/Birds_Daly_final_agg.shp
data-raw/shapefiles/species/Birds_Daly_final_agg.shp.xml
data-raw/shapefiles/species/Birds_Daly_final_agg.shx
data-raw/shapefiles/species/Fish_Daly_final_agg.dbf
data-raw/shapefiles/species/Fish_Daly_final_agg.prj
data-raw/shapefiles/species/Fish_Daly_final_agg.sbn
data-raw/shapefiles/species/Fish_Daly_final_agg.sbx
data-raw/shapefiles/species/Fish_Daly_final_agg.shp
data-raw/shapefiles/species/Fish_Daly_final_agg.shp.xml
data-raw/shapefiles/species/Fish_Daly_final_agg.shx
data-raw/shapefiles/species/Turtles_Daly_final_agg.dbf
data-raw/shapefiles/species/Turtles_Daly_final_agg.prj
data-raw/shapefiles/species/Turtles_Daly_final_agg.sbn
data-raw/shapefiles/species/Turtles_Daly_final_agg.sbx
data-raw/shapefiles/species/Turtles_Daly_final_agg.shp
data-raw/shapefiles/species/Turtles_Daly_final_agg.shp.xml
data-raw/shapefiles/species/Turtles_Daly_final_agg.shx
data-raw/shapefiles/threats/buffalos.dbf
data-raw/shapefiles/threats/buffalos.prj
data-raw/shapefiles/threats/buffalos.sbn
data-raw/shapefiles/threats/buffalos.sbx
data-raw/shapefiles/threats/buffalos.shp
data-raw/shapefiles/threats/buffalos.shp.xml
data-raw/shapefiles/threats/buffalos.shx
data-raw/shapefiles/threats/grazing.dbf
data-raw/shapefiles/threats/grazing.prj
data-raw/shapefiles/threats/grazing.sbn
data-raw/shapefiles/threats/grazing.sbx
data-raw/shapefiles/threats/grazing.shp
data-raw/shapefiles/threats/grazing.shp.xml
data-raw/shapefiles/threats/grazing.shx
data-raw/shapefiles/threats/para_grass.dbf
data-raw/shapefiles/threats/para_grass.prj
data-raw/shapefiles/threats/para_grass.sbn
data-raw/shapefiles/threats/para_grass.sbx
data-raw/shapefiles/threats/para_grass.shp
data-raw/shapefiles/threats/para_grass.shp.xml
data-raw/shapefiles/threats/para_grass.shx
data-raw/shapefiles/threats/pigs.dbf
data-raw/shapefiles/threats/pigs.prj
data-raw/shapefiles/threats/pigs.sbn
data-raw/shapefiles/threats/pigs.sbx
data-raw/shapefiles/threats/pigs.shp
data-raw/shapefiles/threats/pigs.shp.xml
data-raw/shapefiles/threats/pigs.shx
data/aus_outline.rda
data/aus_outline_prj.rda
data/cons_feat_array.rda
data/daly.rda
data/daly_outline.rda
data/daly_outline_prj.rda
data/daly_prj.rda
data/planning_unit.rda
data/rivers.rda
data/rivers_prj.rda
data/site_species_array.rda
data/site_threat_array.rda
data/species_responses.rda
data/treated_area.rda
figures/exp_1/Effort_map_run_1.png
figures/exp_1/Effort_map_run_10.png
figures/exp_1/Effort_map_run_2.png
figures/exp_1/Effort_map_run_3.png
figures/exp_1/Effort_map_run_4.png
figures/exp_1/Effort_map_run_5.png
figures/exp_1/Effort_map_run_6.png
figures/exp_1/Effort_map_run_7.png
figures/exp_1/Effort_map_run_8.png
figures/exp_1/Effort_map_run_9.png
figures/exp_1/Prop_species_above_below_on_target.png
figures/exp_1/nice_effort_map.png
figures/exp_1/perc_change_from_target.png
figures/exp_1/trackers/tracker_run_1.png
figures/exp_1/trackers/tracker_run_10.png
figures/exp_1/trackers/tracker_run_2.png
figures/exp_1/trackers/tracker_run_3.png
figures/exp_1/trackers/tracker_run_4.png
figures/exp_1/trackers/tracker_run_5.png
figures/exp_1/trackers/tracker_run_6.png
figures/exp_1/trackers/tracker_run_7.png
figures/exp_1/trackers/tracker_run_8.png
figures/exp_1/trackers/tracker_run_9.png
figures/exp_2/Effort_map_run_1.png
figures/exp_2/Effort_map_run_2.png
figures/exp_2/Effort_map_run_3.png
figures/exp_2/Effort_map_run_4.png
figures/exp_2/Effort_map_run_5.png
figures/exp_2/Prop_species_above_below_on_target.png
figures/exp_2/Representation_error.png
figures/exp_2/perc_change_from_target.png
figures/exp_2/trackers/tracker_run_1.png
figures/exp_2/trackers/tracker_run_2.png
figures/exp_2/trackers/tracker_run_3.png
figures/exp_2/trackers/tracker_run_4.png
figures/exp_2/trackers/tracker_run_5.png
man/Optimize.Rd
man/bar_plot_change_from_target.Rd
man/bar_plot_representation_error.Rd
man/bar_plot_species_proportions.Rd
man/cal_norm_lower_bound.Rd
man/cal_norm_upper_bound.Rd
man/calc_daly_prop_selected.Rd
man/calc_uncertainty_diagnostics.Rd
man/calculate_representation_error.Rd
man/components_OF.Rd
man/count.persistence.Rd
man/create_exp_des.Rd
man/df_to_list.Rd
man/get.action.costs.Rd
man/get.required_actions.Rd
man/get.site.action.intensities.combs.Rd
man/get.threat.intensity.category.Rd
man/get_cost_breakdown.Rd
man/get_run_diagnostics.Rd
man/get_selected_pu_index.Rd
man/hello.Rd
man/loop.Rd
man/loop_simplify.Rd
man/moving_index_search.Rd
man/one_run.Rd
man/plot_change_from_target.Rd
man/plot_effort_map.Rd
man/plot_representation_error.Rd
man/plot_species_proportions.Rd
man/plot_trackers.Rd
man/set_fixed_targets.Rd
man/set_scaled_targets.Rd
man/wrapper.Rd
man/wrapper_to_get_responses.Rd
man/write_out_csv.Rd
man/write_out_txt.Rd
priorityeffort.Rproj
