%>%	pipe
%T>%	tee
A	OptimizationProblem-methods
A,OptimizationProblem-method	OptimizationProblem-methods
action_names	action_names
action_names,ProjectProblem-method	action_names
add_absolute_targets	add_absolute_targets
add_absolute_targets,ProjectProblem,character-method	add_absolute_targets
add_absolute_targets,ProjectProblem,numeric-method	add_absolute_targets
add_binary_decisions	add_binary_decisions
add_default_solver	add_default_solver
add_feature_weights	add_feature_weights
add_feature_weights,ProjectProblem,character-method	add_feature_weights
add_feature_weights,ProjectProblem,numeric-method	add_feature_weights
add_gurobi_solver	add_gurobi_solver
add_heuristic_solver	add_heuristic_solver
add_locked_in_constraints	add_locked_in_constraints
add_locked_in_constraints,ProjectProblem,character-method	add_locked_in_constraints
add_locked_in_constraints,ProjectProblem,logical-method	add_locked_in_constraints
add_locked_in_constraints,ProjectProblem,numeric-method	add_locked_in_constraints
add_locked_out_constraints	add_locked_out_constraints
add_locked_out_constraints,ProjectProblem,character-method	add_locked_out_constraints
add_locked_out_constraints,ProjectProblem,logical-method	add_locked_out_constraints
add_locked_out_constraints,ProjectProblem,numeric-method	add_locked_out_constraints
add_lpsolveapi_solver	add_lpsolveapi_solver
add_lpsymphony_solver	add_lsymphony_solver
add_lsymphony_solver	add_lsymphony_solver
add_manual_locked_constraints	add_manual_locked_constraints
add_manual_locked_constraints,ProjectProblem,data.frame-method	add_manual_locked_constraints
add_manual_locked_constraints,ProjectProblem,tbl_df-method	add_manual_locked_constraints
add_manual_targets	add_manual_targets
add_manual_targets,ProjectProblem,data.frame-method	add_manual_targets
add_manual_targets,ProjectProblem,tbl_df-method	add_manual_targets
add_manual_targets-method	add_manual_targets
add_max_phylo_div_objective	add_max_phylo_div_objective
add_max_richness_objective	add_max_richness_objective
add_max_targets_met_objective	add_max_targets_met_objective
add_min_set_objective	add_min_set_objective
add_random_solver	add_random_solver
add_relative_targets	add_relative_targets
add_relative_targets,ProjectProblem,character-method	add_relative_targets
add_relative_targets,ProjectProblem,numeric-method	add_relative_targets
add_rsymphony_solver	add_rsymphony_solver
ArrayParameter	ArrayParameter-class
ArrayParameter-class	ArrayParameter-class
array_parameters	array_parameters
as	as
as.Id	as
as.Id.character	as
as.list,tbl_df-method	tibble-methods
as.list.OptimizationProblem	as.list
as.list.Parameters	as
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
Collection	Collection-class
Collection-class	Collection-class
col_ids	OptimizationProblem-methods
col_ids,OptimizationProblem-method	OptimizationProblem-methods
compile	compile
compile.ProjectProblem	compile
Constraint	Constraint-class
Constraint-class	Constraint-class
constraints	constraints
Decision	Decision-class
Decision-class	Decision-class
decisions	decisions
feature_names	feature_names
feature_names,ProjectProblem-method	feature_names
get_data	OptimizationProblem-methods
get_data,OptimizationProblem-method	OptimizationProblem-methods
GurobiSolver-class	Solver-class
HeuristicSolver-class	Solver-class
Id	new_id
integer_parameter	scalar_parameters
integer_parameter_array	array_parameters
is	is
is.Id	is
is.Waiver	is
lb	OptimizationProblem-methods
lb,OptimizationProblem-method	OptimizationProblem-methods
LpsolveapiSolver-class	Solver-class
LpsymphonySolver-class	Solver-class
matrix_parameters	matrix_parameters
MiscParameter	MiscParameter-class
MiscParameter-class	MiscParameter-class
misc_parameter	misc_parameter
modelsense	OptimizationProblem-methods
modelsense,OptimizationProblem-method	OptimizationProblem-methods
ncell	OptimizationProblem-methods
ncell,OptimizationProblem-method	OptimizationProblem-methods
ncol	OptimizationProblem-methods
ncol,OptimizationProblem-method	OptimizationProblem-methods
ncol,tbl_df-method	tibble-methods
new_id	new_id
new_optimization_problem	new_optimization_problem
new_waiver	new_waiver
nrow	OptimizationProblem-methods
nrow,OptimizationProblem-method	OptimizationProblem-methods
nrow,tbl_df-method	tibble-methods
number_of_actions	number_of_actions
number_of_actions,OptimizationProblem-method	number_of_actions
number_of_actions,ProjectProblem-method	number_of_actions
number_of_branches	OptimizationProblem-methods
number_of_branches,OptimizationProblem-method	OptimizationProblem-methods
number_of_features	number_of_features
number_of_features,OptimizationProblem-method	number_of_features
number_of_features,ProjectProblem-method	number_of_features
number_of_projects	number_of_projects
number_of_projects,OptimizationProblem-method	number_of_projects
number_of_projects,ProjectProblem-method	number_of_projects
numeric_matrix_parameter	matrix_parameters
numeric_parameter	scalar_parameters
numeric_parameter_array	array_parameters
obj	OptimizationProblem-methods
obj,OptimizationProblem-method	OptimizationProblem-methods
Objective	Objective-class
Objective-class	Objective-class
objectives	objectives
oppr	oppr
OptimizationProblem	OptimizationProblem-class
OptimizationProblem-class	OptimizationProblem-class
OptimizationProblem-methods	OptimizationProblem-methods
Parameter	Parameter-class
Parameter-class	Parameter-class
Parameters	Parameters-class
parameters	parameters
Parameters-class	Parameters-class
pipe	pipe
plot.ProjectProblem	plot.ProjectProblem
plot_feature_persistence	plot_feature_persistence
plot_phylo_persistence	plot_phylo_persistence
pproto	pproto
print	print
print,Id-method	print
print,tbl_df-method	print
print.ArrayParameter	print
print.Id	print
print.OptimizationProblem	print
print.ProjectModifier	print
print.ProjectProblem	print
print.ScalarParameter	print
print.Solver	print
problem	problem
ProjectModifier	ProjectModifier-class
ProjectModifier-class	ProjectModifier-class
ProjectProblem	ProjectProblem-class
ProjectProblem-class	ProjectProblem-class
project_cost_effectiveness	project_cost_effectiveness
project_names	project_names
project_names,ProjectProblem-method	project_names
proportion_parameter	scalar_parameters
proportion_parameter_array	array_parameters
pwlobj	OptimizationProblem-methods
pwlobj,OptimizationProblem-method	OptimizationProblem-methods
RandomSolver-class	Solver-class
replacement_costs	replacement_costs
rhs	OptimizationProblem-methods
rhs,OptimizationProblem-method	OptimizationProblem-methods
row_ids	OptimizationProblem-methods
row_ids,OptimizationProblem-method	OptimizationProblem-methods
RsymphonySolver-class	Solver-class
ScalarParameter	ScalarParameter-class
ScalarParameter-class	ScalarParameter-class
scalar_parameters	scalar_parameters
sense	OptimizationProblem-methods
sense,OptimizationProblem-method	OptimizationProblem-methods
show	show
show,Id-method	show
show,OptimizationProblem-method	show
show,Parameter-method	show
show,ProjectModifier-method	show
show,ProjectProblem-method	show
show,Solver-method	show
simulate_ppp_data	simulate_ppp_data
simulate_ptm_data	simulate_ptm_data
sim_actions	sim_data
sim_data	sim_data
sim_features	sim_data
sim_projects	sim_data
sim_tree	sim_data
solution_statistics	solution_statistics
solve	solve
solve,OptimizationProblem,Solver-method	solve
solve,ProjectProblem,missing-method	solve
Solver	Solver-class
Solver-class	Solver-class
solvers	solvers
Target	Target-class
Target-class	Target-class
targets	targets
tee	tee
tibble-methods	tibble-methods
ub	OptimizationProblem-methods
ub,OptimizationProblem-method	OptimizationProblem-methods
vtype	OptimizationProblem-methods
vtype,OptimizationProblem-method	OptimizationProblem-methods
Weight	Weight-class
Weight-class	Weight-class
weights	weights
