Files in prioritizr
Systematic Conservation Prioritization in R

MD5
NEWS.md README.md
NAMESPACE
DESCRIPTION
R/RcppExports.R R/category_vector.R R/add_manual_targets.R R/objectives.R R/add_gurobi_solver.R R/ScalarParameter-proto.R R/add_cplex_solver.R R/distribute_load.R R/add_shuffle_portfolio.R R/add_max_utility_objective.R R/show.R R/OptimizationProblem-methods.R R/add_cbc_solver.R R/Parameter-proto.R R/category_layer.R R/add_max_phylo_div_objective.R R/add_feature_weights.R R/branch_matrix.R R/internal.R R/Target-proto.R R/print.R R/add_default_objective.R R/add_default_decisions.R R/add_min_largest_shortfall_objective.R R/add_default_portfolio.R R/add_mandatory_allocation_constraints.R R/connectivity_matrix.R R/add_rsymphony_solver.R R/Id.R R/solvers.R R/loglinear_interpolation.R R/new_optimization_problem.R R/marxan_connectivity_data_to_matrix.R R/eval_cost_summary.R R/proximity_matrix.R R/rij_matrix.R R/MiscParameter-proto.R R/add_default_solver.R R/add_max_features_objective.R R/marxan_boundary_data_to_matrix.R R/constraints.R R/portfolios.R R/eval_boundary_summary.R R/add_max_cover_objective.R R/add_loglinear_targets.R R/add_binary_decisions.R R/parameters.R R/add_locked_in_constraints.R R/tbl_df.R R/data.R R/add_min_shortfall_objective.R R/simulate.R R/add_lpsymphony_solver.R R/Solver-proto.R R/add_boundary_penalties.R R/deprecated.R R/number_of_total_units.R R/solve.R R/add_extra_portfolio.R R/ArrayParameter-proto.R R/eval_ferrier_importance.R R/add_neighbor_constraints.R R/targets.R R/number_of_features.R R/penalties.R R/feature_abundances.R R/binary_stack.R R/add_gap_portfolio.R R/add_contiguity_constraints.R R/predefined_optimization_problem.R R/Parameters-proto.R R/add_semicontinuous_decisions.R R/problem.R R/magrittr-operators.R R/number_of_planning_units.R R/add_relative_targets.R R/summaries.R R/decisions.R R/add_manual_bounded_constraints.R R/ConservationModifier-proto.R R/adjacency_matrix.R R/add_asym_connectivity_penalties.R R/zones.R R/misc.R R/eval_connectivity_summary.R R/write_problem.R R/importance.R R/planning_unit_solution_status.R R/pproto.R R/number_of_zones.R R/add_connectivity_penalties.R R/boundary_matrix.R R/feature_names.R R/package.R R/sf.R R/Penalty-proto.R R/compile.R R/eval_feature_representation_summary.R R/Collection-proto.R R/eval_rare_richness_importance.R R/eval_target_coverage_summary.R R/run_calculations.R R/eval_replacement_importance.R R/zone_names.R R/add_manual_locked_constraints.R R/fast_extract.R R/waiver.R R/ConservationProblem-proto.R R/Decision-proto.R R/add_top_portfolio.R R/presolve_check.R R/zzz.R R/marxan_problem.R R/add_feature_contiguity_constraints.R R/Objective-proto.R R/add_linear_penalties.R R/add_cuts_portfolio.R R/eval_n_summary.R R/intersecting_units.R R/add_max_phylo_end_objective.R R/add_locked_out_constraints.R R/add_linear_constraints.R R/add_default_targets.R R/Portfolio-proto.R R/add_proportion_decisions.R R/add_min_set_objective.R R/OptimizationProblem-proto.R R/add_absolute_targets.R R/eval_asym_connectivity_summary.R R/Constraint-proto.R
src/optimization_problem.h
src/Makevars.win
src/rcpp_apply_linear_penalties.cpp
src/Makevars
src/rcpp_apply_connectivity_penalties.cpp
src/rcpp_branch_matrix.cpp
src/rcpp_summarize_exactextractr.cpp
src/rcpp_list_to_matrix_indices.cpp
src/rcpp_apply_feature_contiguity_constraints.cpp
src/rcpp_apply_contiguity_constraints.cpp
src/functions.cpp
src/rcpp_apply_boundary_penalties.cpp
src/rcpp_sp_to_polyset.cpp
src/RcppExports.cpp
src/rcpp_add_linear_constraints.cpp
src/rcpp_forbid_solution.cpp
src/package.h
src/rcpp_apply_max_cover_objective.cpp
src/rcpp_apply_neighbor_constraints.cpp
src/rcpp_apply_min_largest_shortfall_objective.cpp
src/rcpp_apply_max_features_objective.cpp
src/rcpp_apply_min_set_objective.cpp
src/rcpp_boundary_data.cpp
src/init.c
src/rcpp_ferrier_score.cpp
src/rcpp_boundary_data.h
src/rcpp_apply_bounded_constraints.cpp
src/rcpp_connectivity.cpp
src/rcpp_boundary.cpp
src/rcpp_add_rij_data.cpp
src/rcpp_asym_connectivity.cpp
src/rcpp_ferrier_score.h
src/rcpp_apply_max_phylo_objective.cpp
src/rcpp_apply_min_shortfall_objective.cpp
src/rcpp_absolute_amount_held_by_solution.cpp
src/rcpp_apply_asym_connectivity_penalties.cpp
src/rcpp_apply_max_utility_objective.cpp
src/rcpp_apply_locked_constraints.cpp
src/optimization_problem.cpp
src/rcpp_apply_feature_weights.cpp
src/rcpp_apply_decisions.cpp
src/rcpp_add_zones_constraints.cpp
src/functions.h
inst/doc/calibrating_trade-offs_tutorial.Rmd inst/doc/package_overview.Rmd
inst/doc/publication_record.html
inst/doc/management_zones_tutorial.html
inst/doc/connectivity_tutorial.Rmd inst/doc/management_zones_tutorial.Rmd inst/doc/gurobi_installation_guide.Rmd
inst/doc/calibrating_trade-offs_tutorial.html
inst/doc/solver_benchmarks.html
inst/doc/prioritizr.html
inst/doc/package_overview.html
inst/doc/prioritizr.Rmd
inst/doc/connectivity_tutorial.html
inst/doc/gurobi_installation_guide.html
inst/doc/solver_benchmarks.Rmd inst/doc/publication_record.Rmd
inst/testdata/polyset_lines.rds
inst/testdata/targets.rds
inst/testdata/polyset_polygons.rds
inst/testdata/rij.rds
inst/extdata/input.dat
inst/extdata/input/puvspr.dat
inst/extdata/input/pu.dat
inst/extdata/input/bound.dat
inst/extdata/input/spec.dat
inst/scripts/builtin-data.R
build/vignette.rds
build/partial.rdb
tests/testthat.R tests/testthat/test_internal.R tests/testthat/test_eval_rare_richness_importance.R tests/testthat/test_category_layer.R tests/testthat/test_add_min_set_objective.R tests/testthat/test_boundary_matrix.R tests/testthat/test_eval_asym_connectivity_summary.R tests/testthat/test_add_max_phylo_end_objective.R tests/testthat/test_problem_negative.R tests/testthat/test_add_max_features_objective.R tests/testthat/test_add_max_utility_objective.R tests/testthat/test_feature_abundances.R tests/testthat/test_eval_n_summary.R tests/testthat/test_connectivity_matrix.R tests/testthat/test_add_manual_targets.R tests/testthat/test_eval_replacement_importance.R tests/testthat/test_add_relative_targets.R tests/testthat/test_add_gap_portfolio.R tests/testthat/test_add_cbc_solver.R tests/testthat/test_add_linear_penalties.R tests/testthat/test_eval_feature_representation_summary.R tests/testthat/helper_connectivity.R tests/testthat/test_Id.R tests/testthat/test_zones.R tests/testthat/test_add_connectivity_penalties.R tests/testthat/test_compile.R tests/testthat/helper_ferrier_scores.R tests/testthat/test_fast_extract.R tests/testthat/test_Waiver.R tests/testthat/test_rij_matrix.R tests/testthat/test_intersecting_units.R tests/testthat/test_add_min_largest_shortfall_objective.R tests/testthat/test_add_mandatory_allocation_constraints.R tests/testthat/test_marxan_connectivity_data_to_matrix.R tests/testthat/test_presolve_check.R tests/testthat/test_eval_target_coverage_summary.R tests/testthat/test_parameters.R tests/testthat/test_binary_stack.R tests/testthat/test_eval_cost_summary.R tests/testthat/test_add_feature_contiguity_constraints.R tests/testthat/test_write_problem.R tests/testthat/helper_asym_connectivity.R tests/testthat/test_branch_matrix.R tests/testthat/test_adjacency_matrix.R tests/testthat/test_add_contiguity_constraints.R tests/testthat/test_add_top_portfolio.R tests/testthat/test_add_min_shortfall_objective.R tests/testthat/test_add_gurobi_solver.R tests/testthat/test_problem.R tests/testthat/test_add_cuts_portfolio.R tests/testthat/test_add_extra_portfolio.R tests/testthat/test_add_absolute_targets.R tests/testthat/test_eval_connectivity_summary.R tests/testthat/test_add_lpsymphony_solver.R tests/testthat/test_documentation.R tests/testthat/test_add_cplex_solver.R tests/testthat/helper_skip.R tests/testthat/test_add_max_phylo_div_objective.R tests/testthat/test_add_locked_in_constraints.R tests/testthat/test_add_asym_connectivity_penalties.R tests/testthat/test_sp_to_polyset.R tests/testthat/test_decisions.R tests/testthat/test_OptimizationProblem.R tests/testthat/test_marxan_problem.R tests/testthat/test_add_linear_constraints.R tests/testthat/test_add_neighbor_constraints.R tests/testthat/test_add_max_cover_objective.R tests/testthat/test_add_locked_out_constraints.R tests/testthat/test_defaults.R tests/testthat/test_add_manual_bounded_constraints.R tests/testthat/test_proximity_matrix.R tests/testthat/test_eval_boundary_summary.R tests/testthat/test_simulate.R tests/testthat/test_add_manual_locked_constraints.R tests/testthat/test_category_vector.R tests/testthat/test_add_boundary_penalties.R tests/testthat/test_eval_ferrier_importance.R tests/testthat/test_cplex.R tests/testthat/test_add_loglinear_targets.R tests/testthat/test_as_Matrix.R tests/testthat/test_planning_unit_solution_status.R tests/testthat/test_pproto.R tests/testthat/test_run_calculations.R tests/testthat/test_add_rsymphony_solver.R tests/testthat/test_add_feature_weights.R tests/testthat/test_add_shuffle_portfolio.R tests/testthat/test_solve.R tests/testthat/test_disribute_load.R tests/testthat/test_marxan_boundary_data_to_matrix.R tests/testthat/helper_boundary.R tests/testthat/test_add_default_solver.R vignettes/calibrating_trade-offs_tutorial.Rmd vignettes/package_overview.Rmd vignettes/connectivity_tutorial.Rmd vignettes/management_zones_tutorial.Rmd vignettes/gurobi_installation_guide.Rmd
vignettes/references.bib
vignettes/prioritizr.Rmd
vignettes/reference-style.csl
vignettes/solver_benchmarks.Rmd vignettes/publication_record.Rmd
vignettes/figures/free-academic-license-page.png
vignettes/figures/cmd-windows-success.png
vignettes/figures/model-test.png
vignettes/figures/map.jpg
vignettes/figures/actual-license.png
data/sim_phylogeny.rda
data/sim_pu_raster.rda
data/sim_pu_points.rda
data/sim_locked_out_raster.rda
data/sim_pu_zones_polygons.rda
data/sim_pu_zones_stack.rda
data/sim_pu_lines.rda
data/sim_locked_in_raster.rda
data/sim_features_zones.rda
data/sim_pu_polygons.rda
data/sim_pu_zones_sf.rda
data/sim_pu_sf.rda
data/sim_features.rda
man/array_parameters.Rd man/add_min_set_objective.Rd man/add_locked_in_constraints.Rd man/add_cplex_solver.Rd man/add_max_utility_objective.Rd man/MiscParameter-class.Rd man/compile.Rd man/write_problem.Rd man/OptimizationProblem-class.Rd man/tibble-methods.Rd man/OptimizationProblem-methods.Rd man/add_cbc_solver.Rd man/eval_asym_connectivity_summary.Rd man/feature_names.Rd man/rij_matrix.Rd man/add_binary_decisions.Rd man/add_cuts_portfolio.Rd man/number_of_total_units.Rd man/boundary_matrix.Rd man/eval_replacement_importance.Rd man/add_lsymphony_solver.Rd man/Constraint-class.Rd man/feature_abundances.Rd man/category_layer.Rd man/loglinear_interpolation.Rd man/add_extra_portfolio.Rd man/pproto.Rd man/adjacency_matrix.Rd man/as.Rd man/add_shuffle_portfolio.Rd man/number_of_zones.Rd man/add_semicontinuous_decisions.Rd man/add_top_portfolio.Rd man/predefined_optimization_problem.Rd man/ConservationProblem-class.Rd man/objectives.Rd man/solvers.Rd man/add_default_decisions.Rd man/add_default_solver.Rd man/zone_names.Rd man/misc_parameter.Rd man/as.list.Rd man/matrix_parameters.Rd man/number_of_features.Rd man/add_manual_locked_constraints.Rd man/connectivity_matrix.Rd man/eval_feature_representation_summary.Rd man/simulate_cost.Rd man/add_relative_targets.Rd man/summaries.Rd man/solve.Rd man/run_calculations.Rd man/new_waiver.Rd man/marxan_boundary_data_to_matrix.Rd man/zones.Rd man/add_min_largest_shortfall_objective.Rd man/add_neighbor_constraints.Rd man/distribute_load.Rd man/eval_connectivity_summary.Rd man/add_contiguity_constraints.Rd man/add_absolute_targets.Rd man/add_boundary_penalties.Rd man/add_min_shortfall_objective.Rd man/constraints.Rd man/add_linear_penalties.Rd man/eval_n_summary.Rd man/new_id.Rd man/eval_target_coverage_summary.Rd man/add_manual_bounded_constraints.Rd man/ArrayParameter-class.Rd man/add_locked_out_constraints.Rd man/Penalty-class.Rd man/add_feature_weights.Rd man/Target-class.Rd man/add_loglinear_targets.Rd man/branch_matrix.Rd man/marxan_problem.Rd man/simulate_species.Rd man/presolve_check.Rd man/add_max_phylo_div_objective.Rd man/intersecting_units.Rd man/portfolios.Rd man/add_max_phylo_end_objective.Rd man/targets.Rd man/pipe.Rd man/problem.Rd man/prioritizr-deprecated.Rd man/add_rsymphony_solver.Rd man/add_feature_contiguity_constraints.Rd man/eval_cost_summary.Rd man/category_vector.Rd man/eval_boundary_summary.Rd man/add_gap_portfolio.Rd man/print.Rd man/prioritizr.Rd man/add_connectivity_penalties.Rd man/marxan_connectivity_data_to_matrix.Rd man/number_of_planning_units.Rd man/new_optimization_problem.Rd man/penalties.Rd man/importance.Rd man/Objective-class.Rd man/eval_rare_richness_importance.Rd man/show.Rd man/tee.Rd man/ConservationModifier-class.Rd man/Parameters-class.Rd man/add_proportion_decisions.Rd man/add_manual_targets.Rd man/add_max_cover_objective.Rd man/fast_extract.Rd man/Collection-class.Rd man/parameters.Rd man/add_gurobi_solver.Rd man/proximity_matrix.Rd man/add_mandatory_allocation_constraints.Rd man/eval_ferrier_importance.Rd man/simulate_data.Rd man/Decision-class.Rd man/binary_stack.Rd man/ScalarParameter-class.Rd man/add_asym_connectivity_penalties.Rd man/is.Rd man/add_max_features_objective.Rd man/Solver-class.Rd man/sim_data.Rd man/Portfolio-class.Rd man/scalar_parameters.Rd man/decisions.Rd man/add_linear_constraints.Rd man/Parameter-class.Rd
man/figures/README-contiguity_constraints-1.png
man/figures/logo.png
man/figures/README-minimal_solution-1.png
man/figures/README-unnamed-chunk-10-1.png
man/figures/README-unnamed-chunk-9-1.png
man/figures/README-unnamed-chunk-11-1.png
man/figures/README-boundary_penalties-1.png
man/figures/README-locked_in_constraints-1.png
man/figures/README-replacement_cost-1.png
prioritizr documentation built on Sept. 18, 2022, 1:05 a.m.