| EF |
Man page
|
| act_on_loaded_existing_tzar_run |
Man page
|
| add_missing_PU_rows_to_PU_Count_dataframe |
Man page
|
| always_set_new_or_forced_rand_seed |
Man page
|
| apply_const_error_to_spp_occupancy_data |
Man page
|
| apply_error_to_spp_occupancy_data |
Man page
|
| assert_edge_list_does_not_violate_assumptions |
Man page
|
| bdpg |
Man page
|
| build_PU_spp_pair_indices_from_occ_matrix |
Man page
|
| build_topdir_name |
Man page
|
| ccBip |
Man page
|
| ccLowDot |
Man page
|
| ccTopDot |
Man page
|
| check_for_imperfect_wrap |
Man page
|
| choose_a_best_solution_ID_according_to_marxan |
Man page
|
| compute_and_save_dist_and_network_metrics_for_prob |
Man page
|
| compute_and_set_obj_checksum |
Man page
|
| compute_and_verify_rep_scores_wrt |
Man page
|
| compute_confusion_matrix_based_scores |
Man page
|
| compute_igraph_related_network_measures |
Man page
|
| compute_marxan_solution_scores |
Man page
|
| compute_marxan_solution_scores_wrt_COR_or_APP_reps_and_costs |
Man page
|
| compute_marxan_species_penalty_factor |
Man page
|
| compute_network_measures_using_bipartite_package |
Man page
|
| compute_num_spp_covered_by_solution |
Man page
|
| compute_obj_checksum |
Man page
|
| compute_rep_fraction |
Man page
|
| compute_solution_cost |
Man page
|
| create_APP_prob_info_by_adding_error_to_spp_occ_data |
Man page
|
| create_PU_spp_pair_indices |
Man page
|
| create_PU_spp_pair_names |
Man page
|
| create_RSprob_dir_and_subdirs |
Man page
|
| create_RSrun |
Man page
|
| create_RSrun_dir_and_subdirs |
Man page
|
| create_Xu_graph |
Man page
|
| create_Xu_problem_from_scratch |
Man page
|
| create_Xu_problem_from_scratch_given_4_Xu_metaparams |
Man page
|
| create_Xu_problem_from_scratch_given_params |
Man page
|
| create_Xu_problem_from_scratch_not_using_4_Xu_metaparams |
Man page
|
| create_adj_matrix_with_spp_rows_vs_PU_cols |
Man page
|
| create_allowable_size_Xu_problem_from_scratch |
Man page
|
| create_and_init_APP_bdprob |
Man page
|
| create_dirs_for_APP_prob |
Man page
|
| create_eligible_PU_set |
Man page
|
| create_nodes_data_structure |
Man page
|
| create_wrapping_PU_spp_table |
Man page
|
| derive_Xu_control_parameters |
Man page
|
| do_APP_simple_richness_analysis_and_output |
Man page
|
| do_COR_simple_richness_analysis_and_output |
Man page
|
| do_Greedy_analysis_and_output |
Man page
|
| do_gurobi_analysis_and_output |
Man page
|
| do_marxan_analysis_and_output |
Man page
|
| do_rs_analysis_and_output |
Man page
|
| do_sanity_checks |
Man page
|
| dummy |
Source code
|
| find_best_marxan_solutions |
Man page
|
| find_lognormal_to_wrap_around_Xu |
Man page
|
| fix_0_length_list_elements |
Man page
|
| gen_11_variants_mixing_FP_FN_and_cost_error |
Man page
|
| gen_20_basic_variants_including_cost_error |
Man page
|
| gen_4_basic_variants |
Man page
|
| gen_4_simple_random_variants_mixing_FP_FN_and_cost_error |
Man page
|
| gen_6_basic_variants |
Man page
|
| gen_bdprob |
Man page
|
| gen_multi_bdprob |
Man page
|
| gen_new_seed_from_cur_time |
Man page
|
| gen_rounded_abundances |
Man page
|
| gen_single_bdprob_APP |
Man page
|
| gen_single_bdprob_COR |
Man page
|
| gen_single_bdprob_COR_from_scratch_or_Xu_bench_file |
Man page
|
| gen_single_bdprob_WRAP |
Man page
|
| gen_wrapped_bdprob_COR |
Man page
|
| get_RSprob_path_networks |
Man page
|
| get_RSprob_path_plots |
Man page
|
| get_RSprob_path_topdir |
Man page
|
| get_UUID_from_file_path |
Man page
|
| get_base_cor_bdprob_for_given_app_bdprob |
Man page
|
| get_bdprob_from_rds_file |
Man page
|
| get_current_os |
Man page
|
| get_forced_seed_value_if_necessary |
Man page
|
| get_integerize_function |
Man page
|
| get_marxan_solution_choice_string |
Man page
|
| init_for_bdpg |
Man page
|
| init_object_graph_data |
Man page
|
| link_nodes_between_groups |
Man page
|
| link_nodes_within_groups |
Man page
|
| list_as_data_frame_with_0_length_vals_replaced_by_NA |
Man page
|
| list_with_0_length_vals_replaced_by_NA |
Man page
|
| load_existing_tzar_run_from_glass |
Man page
|
| load_marxan_best_df_from_file_and_sort_and_add_missing_PUs |
Man page
|
| load_marxan_mvbest_df_from_file_and_sort_by_CF |
Man page
|
| load_marxan_solutionsmatrix_and_add_missing_PUs |
Man page
|
| load_marxan_ssoln_df_from_file_and_sort_by_PU |
Man page
|
| look_up_object_by_UUID |
Man page
|
| make_sure_no_spp_eradicated_by_setting_FNs |
Man page
|
| make_sure_that_cor_bdprob_is_base_of_app_bdprob |
Man page
|
| match_FP_and_FN_counts_to_smaller_of_the_two |
Man page
|
| options_are_legal_for_single_bdprob_WRAP |
Man page
|
| plot_degree_and_abundance_dists_for_node_graph |
Man page
|
| plot_final_degree_dist_for_node_graph |
Man page
|
| plot_incremental_marxan_summed_solution_representations |
Man page
|
| plot_incremental_marxan_summed_solution_reps_for_COR_and_APP |
Man page
|
| plot_marxan_best_solution_scores_COR_and_APP |
Man page
|
| plot_rank_abundance_dist_for_node_graph |
Man page
|
| read_Xu_problem_from_Xu_file |
Man page
|
| read_marxan_output_files |
Man page
|
| redundancy |
Man page
|
| remove_base_spp_abundances_from_wrapping_distribution |
Man page
|
| repro_RSrun |
Man page
|
| repro_do_Greedy_analysis_and_output |
Man page
|
| run_gurobi |
Man page
|
| run_marxan |
Man page
|
| safe_sample |
Man page
|
| save_obj_with_checksum |
Man page
|
| save_rsprob |
Man page
|
| save_rsprob_results_data |
Man page
|
| search_for_approximating_lognormal |
Man page
|
| see_if_marxan_best_was_actually_best |
Man page
|
| see_if_there_are_any_duplicate_links |
Man page
|
| set_const_FP_and_FN_rates |
Man page
|
| set_marxan_controls_and_run_marxan |
Man page
|
| set_new_or_forced_rand_seed_if_necessary |
Man page
|
| set_seed_if_necessary_helper |
Man page
|
| set_up_for_and_run_gurobi |
Man page
|
| set_up_for_and_run_gurobi_APP |
Man page
|
| set_up_for_and_run_gurobi_COR |
Man page
|
| set_up_for_and_run_marxan |
Man page
|
| set_up_for_and_run_marxan_APP |
Man page
|
| set_up_for_and_run_marxan_COR |
Man page
|
| set_up_for_and_run_simple_richness |
Man page
|
| set_up_for_and_run_simple_richness_APP |
Man page
|
| set_up_for_and_run_simple_richness_COR |
Man page
|
| single_action_using_tzar_reps |
Man page
|
| sort_within_rows |
Man page
|
| std_param_defns |
Man page
|
| stop_bdpg |
Man page
|
| strip_trailing_slash |
Man page
|
| summarize_and_plot_graph_and_distribution_structure_information |
Man page
|
| summarize_pu_and_spp_dist_data_from_marxan_puvspr_input_file |
Man page
|
| summarize_pu_and_spp_dist_data_from_pu_spp_amt_df |
Man page
|
| touch |
Man page
|
| trim_abundances |
Man page
|
| validate_wrap |
Man page
|
| value_or_1_if_null |
Man page
|
| value_or_FALSE_if_null |
Man page
|
| vb |
Man page
|
| verify_that_generated_solution_really_is_a_solution |
Man page
|
| vn |
Man page
|
| wrap_abundance_dist_around_Xu_problem |
Man page
|
| wrap_abundances_around_eligible_set |
Man page
|
| write_all_marxan_input_files |
Man page
|
| write_all_marxan_input_files_from_vectors |
Man page
|
| write_marxan_pu.dat_input_file |
Man page
|
| write_marxan_pu.dat_input_file_from_vectors |
Man page
|
| write_marxan_puvspr.dat_input_file |
Man page
|
| write_marxan_spec.dat_input_file |
Man page
|
| write_marxan_spec.dat_input_file_from_vectors |
Man page
|
| write_network_to_marxan_files |
Man page
|
| write_results_to_files |
Man page
|
