Matlab Index

Matlab Directories

Matlab Files found in these Directories

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