PSAMM API

• psamm.balancecheck – check balance of charge and formula
• psamm.command – Command line interface
• psamm.database – Reaction database
• psamm.datasource.context – File system contexts
• psamm.datasource.entry – Model entry representations
• psamm.datasource.kegg – KEGG data parser
• psamm.datasource.modelseed – ModelSEED data parser
• psamm.datasource.native – Native data format parser
• psamm.datasource.reaction – Parser for reactions
• psamm.datasource.sbml – SBML model parser
• psamm.expression.affine – Affine expressions
• psamm.expression.boolean – Boolean expressions
• psamm.fastcore – Fastcore (approximate consistent subset)
• psamm.fastgapfill – FastGapFill algorithm
• psamm.fluxanalysis – Constraint-based reaction flux analysis
• psamm.fluxcoupling – Flux coupling analysis
• psamm.formula – Chemical compound formula
• psamm.gapfill – GapFind/GapFill
• psamm.gapfilling – Gap-filling functions
• psamm.lpsolver.cplex – CPLEX LP solver
• psamm.lpsolver.generic – Generic linear programming solver
• psamm.lpsolver.glpk – GLPK LP solver
• psamm.lpsolver.gurobi – Gurobi LP solver
• psamm.lpsolver.lp – Linear programming problems
• psamm.lpsolver.qsoptex – QSopt_ex LP solver
• psamm.massconsistency – Mass consistency check
• psamm.metabolicmodel – Metabolic model representation
• psamm.randomsparse – Find a random minimal network of model reactions
• psamm.reaction – Reaction equations and compounds
• psamm.util – Internal utilities