Matlab Index

Matlab Directories

Matlab Files found in these Directories

FSEOF	emptyOrTextOrCellOfText	getObjectiveString	ravenCobraWrapper
INITStepDesc	emptyOrTextScalar	getPathwayDimensions	readYAMLmodel
ManualINITTests	expandModel	getPhylDist	removeBadRxns
SBMLFromExcel	exportForGit	getRxnsFromKEGG	removeGenes
addExchangeRxns	exportModel	getRxnsFromMetaCyc	removeIdentifierPrefix
addGenesRaven	exportModelToSIF	getRxnsInComp	removeLowScoreGenes
addIdentifierPrefix	exportToExcelFormat	getToolboxVersion	removeMets
addJavaPaths	exportToTabDelimited	getTransportRxns	removeRavenFromPath
addMets	extractMiriam	getWSLpath	removeReactions
addRavenToUserPath	fillGaps	getWoLFScores	replaceMets
addRxns	fillGapsLargeTests	groupRxnScores	reporterMetabolites
addRxnsGenesMets	fillGapsSmallTests	guessComposition	rescaleModelForINIT
addSpontaneousRxns	findGeneDeletions	haveFlux	reverseRxns
addTransport	findRAVENroot	hmmerTests	runDynamicFBA
analyzeSampling	fitParameters	importExcelModel	runINIT
blastPlusTests	fitTasks	importExportTests	runPhenotypePhasePlane
buildEquation	followChanged	importModel	runProductionEnvelope
canConsume	followFluxes	linkMetaCycKEGGRxns	runRAVENtests
canProduce	ftINIT	loadSheet	runRobustnessAnalysis
cdhitTests	ftINITFillGaps	loadWorkbook	runSimpleOptKnock
changeGeneAssoc	ftINITFillGapsForAllTasks	mafftTests	scoreComplexModel
changeGrRules	ftINITFillGapsMILP	makeFakeBlastStructure	scoreModel
changeRxns	ftINITInternalAlg	makeSomething	setColorToMapRxns
checkFileExistence	gapReport	mapCompartments	setExchangeBounds
checkFunctionUniqueness	generateNewIds	mapPathwayRxnNames	setOmicDataToRxns
checkInstallation	getAllRxnsFromGenes	markPathwayWithExpression	setParam
checkModelStruct	getAllSubGraphs	markPathwayWithFluxes	setRavenSolver
checkProduction	getAllowedBounds	mergeCompartments	setTitle
checkRxn	getBlast	mergeLinear	simplifyModel
checkSolution	getBlastFromExcel	mergeModels	solveLP
checkTasks	getColorCodes	mergeModelsTests	solveQP
checkTasksTests	getDiamond	miriamTests	solverTests
cleanSheet	getElementalBalance	modelAbilitiesTests	sortIdentifiers
closeModel	getEnzymesFromMetaCyc	modelConversionTests	sortModel
colorPathway	getEssentialRxns	modelCurationTests	standardizeGrRules
colorSubsystem	getExchangeRxns	modelSortingTests	standardizeModelFieldOrder
combineMetaCycKEGGModels	getExprForRxnScore	optimizeProb	startup
compareMultipleModels	getExpressionStructure	parallelPoolRAVEN	tinitTests
compareRxnsGenesMetsComps	getFluxZ	parseFormulas	trimPathway
constructEquations	getFullPath	parseHPA	tutorial1
constructMultiFasta	getGenesFromGrRules	parseHPArna	tutorial2
constructPathwayFromCelldesigner	getGenesFromKEGG	parseRxnEqu	tutorial2_solutions
constructS	getINITModel	parseScores	tutorial3
consumeSomething	getINITSteps	parseTaskList	tutorial3_solutions
contractModel	getIndexes	permuteModel	tutorial4
convertCharArray	getKEGGModelForOrganism	plotAdditionalInfo	tutorial4_solutions
convertToIrrev	getMD5Hash	plotLabels	tutorial5
copyToComps	getMetaCycModelForOrganism	predictLocalization	tutorial6
deleteUnusedGenes	getMetsFromKEGG	prepINITModel	updateDocumentation
diamondTests	getMetsFromMetaCyc	printFluxes	writeSheet
dispEM	getMetsInComp	printModel	writeYAMLmodel
drawMap	getMinNrFluxes	printModelStats
drawPathway	getModelFromHomology	printOrange
editMiriam	getModelFromKEGG	qMOMA
emptyOrLogicalScalar	getModelFromMetaCyc	randomSampling