addCols                 Add columns to LP problem
addCompartment          Add compartments or update their data
addConstraint           Add constraints to model
addGene                 Add genes or update their data
addMetabolite           Add metabolites or update their data
addReact                Add or modify a reaction
addRows                 Add rows to LP problem
addSingleConstraint     Add single constraint
addSubsystem            Add subsystems or update their data
changeBounds            Change flux bounds
changeObjFunc           Change the objective function
checkCompartmentId      Check compartment IDs and Indices
checkGeneId             Check gene IDs and Indices
checkMetId              Check metabolite IDs and Indices
checkReactId            Check reaction IDs and Indices
checkSubsystemId        Check subsystem IDs and Indices
COBRAR_SETTINGS         Set and get central cobrar parameters
comp_num                Number of compartments
comp_pos                Index of compartment(s)
constraint_num          Number of constraints
Constraints-class       Structure of Constraints Class
countElements           Count elements in formulas
deadEndMetabolites      Identify dead end metabolites
deleteLP                Delete an LP problem
elements                Data frame of elements and their average
                        weights
fba                     Flux Balance Analysis
findExchReact           Find exchange reactions
fixBMRatios             Fixate biomass ratios
fluxBMCoupling          Couple reaction flux bounds to biomass
                        production
FluxPrediction-class    Structure of FluxPrediction Class
frog                    FROG: Reproducible fitness and robustness
                        diagnostics for constraint-based models
fva                     Flux Variability Analysis (FVA)
fvaJob                  Wrapper function for efficient FVA
gene_num                Number of genes
gene_pos                Index of gene(s)
geneDel                 Identify reactions affected by gene knockouts
getColsPrimal           Retrieve column primal value
getExchanges            Get metabolite exchange rates
getObjValue             Get the objective value of a solved LP problem
getRedCosts             Retrieve column reduced costs
getSolStat              Get the solver status
guessBMReaction         Guess biomass reaction(s)
joinModels              Join multiple metabolic models to form a
                        community
loadLPprob              Initialize a LP problem
loadMatrix              Populate a constraint-X-variable matrix
LPproblem_glpk-class    Structure of LPproblem_glpk Class
LPproblem-class         Structure of LPproblem Class
mass                    Calculate molar mass of molecules
met_num                 Number of metabolites
met_pos                 Index of metabolite(s)
ModelComm-class         Structure of ModelComm Class
ModelOrg-class          Structure of ModelOrg Class
pfba                    Parsimonious Flux Balance Analysis (pFBA)
pfbaHeuristic           Heuristic parsimonious Flux Balance Analysis
                        (pFBA)
printConstraint         Print Constraint(s)
printReaction           Print reaction(s)
react_num               Number of reactions
react_pos               Index of reaction(s)
readSBMLmod             Reads an SBML file and constructs an object of
                        class 'ModelOrg'
readSybilmod            Reads a sybil model file and constructs an
                        object of cobrar's class 'ModelOrg'
rmCompartment           Remove compartments from a model
rmConstraint            Remove constraints
rmGene                  Remove genes from a model
rmMetabolite            Remove metabolites from a model
rmReact                 Remove reactions from a model
rmSubsystem             Remove subsystems from a model
setColsBndsObjCoefs     Set column bounds and objective coefficients
setColsKind             Set column types
setObjDir               Set objective direction
setObjDirection         Set objective direction
setRowsBnds             Set row bounds
show,FluxPrediction-method
                        Print a short summary of a flux prediction
                        result
show,ModelOrg-method    Print a short summary of a metabolic network
                        model
solveLp                 Solve an LP problem
subsys_num              Number of subsystems
subsys_pos              Index of subsystem(s)
writeSBMLmod            Exports a Metabolic Network in SBML Format
