Optimal Project Prioritization

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Documentation for package ‘oppr’ version 1.0.4

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A B C D F G H I L M N O P R S T U V W misc

-- A --

A Optimization problem methods
A-method Optimization problem methods
action_names Action names
action_names-method Action names
add_absolute_targets Add absolute targets
add_absolute_targets-method Add absolute targets
add_binary_decisions Add binary decisions
add_default_solver Add a default solver
add_feature_weights Add feature weights
add_feature_weights-method Add feature weights
add_gurobi_solver Add a 'Gurobi' solver
add_heuristic_solver Add a heuristic solver
add_locked_in_constraints Add locked in constraints
add_locked_in_constraints-method Add locked in constraints
add_locked_out_constraints Add locked out constraints
add_locked_out_constraints-method Add locked out constraints
add_lpsolveapi_solver Add a lp_solve solver with 'lpSolveAPI'
add_lpsymphony_solver Add a SYMPHONY solver with 'lpsymphony'
add_lsymphony_solver Add a SYMPHONY solver with 'lpsymphony'
add_manual_locked_constraints Add manually specified locked constraints
add_manual_locked_constraints-method Add manually specified locked constraints
add_manual_targets Add manual targets
add_manual_targets-method Add manual targets
add_max_phylo_div_objective Add maximum phylogenetic diversity objective
add_max_richness_objective Add maximum richness objective
add_max_targets_met_objective Add maximum targets met objective
add_min_set_objective Add minimum set objective
add_random_solver Add a random solver
add_relative_targets Add relative targets
add_relative_targets-method Add relative targets
add_rsymphony_solver Add a SYMPHONY solver with 'Rsymphony'
ArrayParameter Array parameter prototype
ArrayParameter-class Array parameter prototype
array_parameters Array parameters
as Coerce object to another object
as.Id Coerce object to another object
as.Id.character Coerce object to another object
as.list-method Manipulate tibbles
as.list.OptimizationProblem Convert 'OptimizationProblem' to list
as.list.Parameters Coerce object to another object

-- B --

binary_matrix_parameter Matrix parameters
binary_parameter Scalar parameters
binary_parameter_array Array parameters
branch_matrix Branch matrix
branch_matrix.default Branch matrix
branch_matrix.phylo Branch matrix

-- C --

Collection Collection prototype
Collection-class Collection prototype
col_ids Optimization problem methods
col_ids-method Optimization problem methods
compile Compile a problem
compile.ProjectProblem Compile a problem
Constraint Constraint prototype
Constraint-class Constraint prototype
constraints Project prioritization problem constraints

-- D --

Decision Decision prototype
Decision-class Decision prototype
decisions Specify the type of decisions

-- F --

feature_names Feature names
feature_names-method Feature names

-- G --

get_data Optimization problem methods
get_data-method Optimization problem methods
GurobiSolver-class Solver prototype

-- H --

HeuristicSolver-class Solver prototype

-- I --

Id Identifier
integer_parameter Scalar parameters
integer_parameter_array Array parameters
is Is it?
is.Id Is it?
is.Waiver Is it?

-- L --

lb Optimization problem methods
lb-method Optimization problem methods
LpsolveapiSolver-class Solver prototype
LpsymphonySolver-class Solver prototype

-- M --

matrix_parameters Matrix parameters
MiscParameter Miscellaneous parameter prototype
MiscParameter-class Miscellaneous parameter prototype
misc_parameter Miscellaneous parameter
modelsense Optimization problem methods
modelsense-method Optimization problem methods

-- N --

ncell Optimization problem methods
ncell-method Optimization problem methods
ncol Optimization problem methods
ncol-method Optimization problem methods
ncol-method Manipulate tibbles
new_id Identifier
new_optimization_problem Optimization problem
new_waiver Waiver
nrow Optimization problem methods
nrow-method Optimization problem methods
nrow-method Manipulate tibbles
number_of_actions Number of actions
number_of_actions-method Number of actions
number_of_branches Optimization problem methods
number_of_branches-method Optimization problem methods
number_of_features Number of features
number_of_features-method Number of features
number_of_projects Number of projects
number_of_projects-method Number of projects
numeric_matrix_parameter Matrix parameters
numeric_parameter Scalar parameters
numeric_parameter_array Array parameters

-- O --

obj Optimization problem methods
obj-method Optimization problem methods
Objective Objective prototype
Objective-class Objective prototype
objectives Problem objective
oppr oppr: Optimal Project Prioritization
OptimizationProblem Optimization problem class
OptimizationProblem-class Optimization problem class
OptimizationProblem-methods Optimization problem methods

-- P --

Parameter Parameter class
Parameter-class Parameter class
Parameters Parameters class
parameters Parameters
Parameters-class Parameters class
pipe Pipe operator
plot.ProjectProblem Plot a solution to a project prioritization problem
plot_feature_persistence Plot a bar plot to visualize a project prioritization
plot_phylo_persistence Plot a phylogram to visualize a project prioritization
pproto Create a new 'pproto' object
print Print
print-method Print
print.ArrayParameter Print
print.Id Print
print.OptimizationProblem Print
print.ProjectModifier Print
print.ProjectProblem Print
print.ScalarParameter Print
print.Solver Print
problem Project prioritization problem
ProjectModifier Conservation problem modifier prototype
ProjectModifier-class Conservation problem modifier prototype
ProjectProblem Project problem class
ProjectProblem-class Project problem class
project_cost_effectiveness Project cost effectiveness
project_names Project names
project_names-method Project names
proportion_parameter Scalar parameters
proportion_parameter_array Array parameters
pwlobj Optimization problem methods
pwlobj-method Optimization problem methods

-- R --

RandomSolver-class Solver prototype
replacement_costs Replacement cost
rhs Optimization problem methods
rhs-method Optimization problem methods
row_ids Optimization problem methods
row_ids-method Optimization problem methods
RsymphonySolver-class Solver prototype

-- S --

ScalarParameter Scalar parameter prototype
ScalarParameter-class Scalar parameter prototype
scalar_parameters Scalar parameters
sense Optimization problem methods
sense-method Optimization problem methods
show Show
show-method Show
simulate_ppp_data Simulate data for the 'Project Prioritization Protocol'
simulate_ptm_data Simulate data for 'Priority threat management'
sim_actions Simulated data
sim_data Simulated data
sim_features Simulated data
sim_projects Simulated data
sim_tree Simulated data
solution_statistics Solution statistics
solve Solve
solve-method Solve
Solver Solver prototype
Solver-class Solver prototype
solvers Problem solvers

-- T --

Target Target prototype
Target-class Target prototype
targets Targets
tee Tee operator
tibble-methods Manipulate tibbles

-- U --

ub Optimization problem methods
ub-method Optimization problem methods

-- V --

vtype Optimization problem methods
vtype-method Optimization problem methods

-- W --

Weight Weight prototype
Weight-class Weight prototype
weights Weights

-- misc --

%>% Pipe operator
%T>% Tee operator