API for saezlab/CARNIVAL
A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming
| Global functions | |
|---|---|
| addPerturbationNodes | Man page Source code |
| addSolverPathToEnvironement | Source code |
| calculateWeightedValues | Source code |
| checkCarnivalOptions | Man page Source code |
| checkData | Man page Source code |
| checkMeasurements | Source code |
| checkOptionsValidity | Man page Source code |
| checkPerturbations | Source code |
| checkPriorKnowledgeNetwork | Man page Source code |
| checkSolverPathInEnvironement | Source code |
| checkSolverPathInSystem | Source code |
| checkWeights | Source code |
| cleanupCarnival | Source code |
| collectMetaInfo | Source code |
| concatenateConstraints | Source code |
| correctIdentifiers | Source code |
| correctNodeIdentifiersInNetwork | Source code |
| createBinaries_v2 | Source code |
| createBoundaries_v2 | Source code |
| createBoundary | Source code |
| createConstraint | Source code |
| createConstraintFreeForm | Source code |
| createConstraintsMeasurements_v2 | Source code |
| createConstraints_1_2_v2 | Source code |
| createConstraints_3_v2 | Source code |
| createConstraints_4_5_v2 | Source code |
| createConstraints_6_7_v2 | Source code |
| createConstraints_8_v2 | Source code |
| createEdgesVariables | Source code |
| createFilenames | Source code |
| createGenerals_v2 | Source code |
| createInternalDataRepresentation | Man page Source code |
| createLoopConstraints_v2 | Source code |
| createLpFormulation_v2 | Source code |
| createMeasurementsVariables | Source code |
| createNodesVariables | Source code |
| createObjectiveFunction_v2 | Source code |
| createRunId | Source code |
| createSolverSpecificFiles | Source code |
| createVariablesForIlpProblem | Source code |
| defaultCbcSolveCarnivalOptions | Man page Source code |
| defaultCplexCarnivalOptions | Man page Source code |
| defaultCplexSpecificOptions | Man page Source code |
| defaultListConstraints | Source code |
| defaultLpSolveCarnivalOptions | Man page Source code |
| executeSolversChecks | Source code |
| exportIlpSolutionFromSolutionMatrix | Source code |
| generateLpFileCarnival | Man page Source code |
| getOptionsList | Man page Source code |
| getPriorKnowledgeNetworkNodes | Source code |
| getSolutionMatrixCbc | Source code |
| getSolutionMatrixCplex | Source code |
| getSolutionMatrixGurobi | Source code |
| getSolutionMatrixLpSolve | Source code |
| getSolversSpecificChecks | Source code |
| getSupportedSolvers | Man page Source code |
| getSupportedSolversFunctions | Man page Source code |
| getTime | Source code |
| isInputValidCarnival | Man page Source code |
| parseCplexLog | Man page Source code |
| prepareForCarnivalRun | Man page Source code |
| prepareLPMatrixSingle | Source code |
| preprocessPriorKnowledgeNetwork | Man page Source code |
| processSolution | Man page Source code |
| prune_network | Man page Source code |
| readOptions | Man page Source code |
| runCARNIVAL | Man page Source code |
| runCarnivalWithManualConstraints | Source code |
| runFromLpCarnival | Man page Source code |
| runInverseCarnival | Man page Source code |
| runVanillaCarnival | Man page Source code |
| saveDiagnosticsCplex | Source code |
| searchForCPLEXSolver | Man page Source code |
| sendTaskToSolver | Man page Source code |
| setCarnivalOptions | Man page Source code |
| shiftConstraintSpace | Source code |
| shiftConstraintSpaceBack | Source code |
| solveCarnival | Man page Source code |
| solveCarnivalFromLp | Man page Source code |
| solveWithCbc | Man page Source code |
| solveWithCplex | Source code |
| solveWithGurobi | Man page Source code |
| solveWithLpSolve | Source code |
| suggestedCbcSpecificOptions | Man page Source code |
| suggestedCplexSpecificOptions | Man page Source code |
| testRunCbc | Source code |
| testRunCplex | Man page Source code |
| testRunLpSolve | Source code |
| transformBinaries | Source code |
| transformBounds | Source code |
| transformConstraints | Source code |
| transformObjectiveFunction | Source code |
| transformVariables_v2 | Source code |
| writeCplexCommandFile | Source code |
| writeCplexCommandFileFromJson | Man page Source code |
| writeParsedData | Man page Source code |
| writeSolverFile | Source code |
