Files in WGCNA
Weighted Correlation Network Analysis
MD5
NAMESPACE
DESCRIPTION
Changelog
R/votingLinearPredictor.R
R/proportionsInAdmixture.R
R/userListEnrichment.R
R/quantileC.R
R/accuracyMeasures.R
R/heatmapWithLegend.R
R/AFcorMI.R
R/blockwiseData.R
R/collapseRows.R
R/networkConcepts.R
R/verboseIplot.R
R/consensusCalculations.R
R/mutualInfoAdjacency.R
R/corAndPvalue.R
R/transposeBigData.R
R/adjacency.polyReg.R
R/conformityDecomposition.R
R/corFunctions.R
R/plotDendrogram.R
R/labelPoints.R
R/returnGeneSetsAsList.R
R/GOenrichmentAnalysis.R
R/smaFunctions.R
R/nearestCentroidPredictor.R
R/moduleMergeUsingKME.R
R/Functions-fromSimilarity.R
R/qvalue.R
R/coClustering.R
R/standardScreeningBinaryTrait.R
R/multiData.R
R/matchLabels.R
R/consensusDissTOMandTree.R
R/kMEcomparisonScatterplot.R
R/collapseRowsUsingKME.R
R/coxRegressionResiduals.R
R/overlapTableUsingKME.R
R/internalConstants.R
R/exportFunctions.R
R/dendrogramAdjustmentFunctions.R
R/Functions-multiData.R
R/empiricalBayesLM.R
R/Functions.R
R/zzz.R
R/hierarchicalConsensusModules.R
R/adjacency.splineReg.R
R/populationMeansInAdmixture.R
R/modulePreservation.R
R/blockwiseModulesC.R
R/TrueTrait.R
R/stratifiedBarplot.R
R/consensusTOM.R
R/sampledModules.R
R/labeledHeatmap.R
R/branchSplit.R
R/consensusRepresentatives.R
R/useNThreads.R
src/Makevars.win
src/Makevars
src/exceptions.h
src/networkFunctions.c
src/compiling.h
src/parallelQuantile_stdC.h
src/pivot.c
src/pivot_declarations.h
src/array.h
src/corFunctions.h
src/parallelQuantile.cc
src/corFunctions-utils.c
src/networkFunctions.h
src/corFunctions.c
src/conditionalThreading.h
src/myMatrixMultiplication.h
src/parallelQuantile.h
src/myMatrixMultiplication.c
src/pivot.h
src/corFunctions-typeDefs.h
src/arrayGeneric.h
src/corFunctions-utils.h
inst/CITATION
data/BrainLists.rda
data/BloodLists.rda
data/BrainRegionMarkers.rda
data/ImmunePathwayLists.rda
data/PWLists.rda
data/SCsLists.rda
man/goodSamplesMS.Rd
man/mtd.rbindSelf.Rd
man/normalizeLabels.Rd
man/AFcorMI.Rd
man/metaZfunction.Rd
man/multiData.Rd
man/bicorAndPvalue.Rd
man/factorizeNonNumericColumns.Rd
man/fixDataStructure.Rd
man/plotMultiHist.Rd
man/standardColors.Rd
man/addTraitToMEs.Rd
man/labeledHeatmap.Rd
man/pruneAndMergeConsensusModules.Rd
man/isMultiData.Rd
man/overlapTableUsingKME.Rd
man/standardScreeningNumericTrait.Rd
man/numbers2colors.Rd
man/hierarchicalConsensusModules.Rd
man/mtd.simplify.Rd
man/plotClusterTreeSamples.Rd
man/scaleFreePlot.Rd
man/consensusDissTOMandTree.Rd
man/newBlockwiseData.Rd
man/rankPvalue.Rd
man/automaticNetworkScreening.Rd
man/standardScreeningBinaryTrait.Rd
man/multiData.eigengeneSignificance.Rd
man/plotNetworkHeatmap.Rd
man/consensusTreeInputs.Rd
man/standardScreeningCensoredTime.Rd
man/individualTOMs.Rd
man/sizeGrWindow.Rd
man/prepComma.Rd
man/nearestCentroidPredictor.Rd
man/nearestNeighborConnectivityMS.Rd
man/matchLabels.Rd
man/plotColorUnderTree.Rd
man/consensusCalculation.Rd
man/displayColors.Rd
man/selectFewestConsensusMissing.Rd
man/swapTwoBranches.Rd
man/mtd.setAttr.Rd
man/removePrincipalComponents.Rd
man/simpleHierarchicalConsensusCalculation.Rd
man/BD.getData.Rd
man/automaticNetworkScreeningGS.Rd
man/colQuantileC.Rd
man/networkScreeningGS.Rd
man/hierarchicalConsensusTOM.Rd
man/list2multiData.Rd
man/metaAnalysis.Rd
man/GTOMdist.Rd
man/collapseRowsUsingKME.Rd
man/clusterCoef.Rd
man/bicovWeights.Rd
man/consensusOrderMEs.Rd
man/minWhichMin.Rd
man/setCorrelationPreservation.Rd
man/coClustering.Rd
man/userListEnrichment.Rd
man/BloodLists.Rd
man/orderMEs.Rd
man/shortenStrings.Rd
man/corPvalueFisher.Rd
man/cutreeStatic.Rd
man/initProgInd.Rd
man/nearestNeighborConnectivity.Rd
man/kMEcomparisonScatterplot.Rd
man/checkSets.Rd
man/overlapTable.Rd
man/networkScreening.Rd
man/recutBlockwiseTrees.Rd
man/prependZeros.Rd
man/removeGreyME.Rd
man/simulateMultiExpr.Rd
man/allocateJobs.Rd
man/multiUnion.Rd
man/nPresent.Rd
man/hierarchicalConsensusMEDissimilarity.Rd
man/randIndex.Rd
man/consensusProjectiveKMeans.Rd
man/corPredictionSuccess.Rd
man/simpleConsensusCalculation.Rd
man/TOMsimilarity.Rd
man/TrueTrait.Rd
man/blockwiseConsensusModules.Rd
man/moduleEigengenes.Rd
man/verboseBarplot.Rd
man/pruneConsensusModules.Rd
man/corAndPvalue.Rd
man/adjacency.polyReg.Rd
man/sampledBlockwiseModules.Rd
man/relativeCorPredictionSuccess.Rd
man/PWLists.Rd
man/mtd.apply.Rd
man/pickHardThreshold.Rd
man/verboseIplot.Rd
man/nSets.Rd
man/collectGarbage.Rd
man/projectiveKMeans.Rd
man/allowWGCNAThreads.Rd
man/hubGeneSignificance.Rd
man/exportNetworkToCytoscape.Rd
man/goodSamples.Rd
man/labels2colors.Rd
man/multiSetMEs.Rd
man/recutConsensusTrees.Rd
man/SCsLists.Rd
man/empiricalBayesLM.Rd
man/intramodularConnectivity.Rd
man/addErrorBars.Rd
man/orderMEsByHierarchicalConsensus.Rd
man/plotEigengeneNetworks.Rd
man/unsignedAdjacency.Rd
man/softConnectivity.Rd
man/verboseScatterplot.Rd
man/scaleFreeFitIndex.Rd
man/consensusRepresentatives.Rd
man/formatLabels.Rd
man/mutualInfoAdjacency.Rd
man/alignExpr.Rd
man/keepCommonProbes.Rd
man/signifNumeric.Rd
man/plotMat.Rd
man/pickSoftThreshold.Rd
man/orderBranchesUsingHubGenes.Rd
man/goodGenesMS.Rd
man/matrixToNetwork.Rd
man/redWhiteGreen.Rd
man/propVarExplained.Rd
man/rgcolors.func.Rd
man/mtd.mapply.Rd
man/addGuideLines.Rd
man/lowerTri2matrix.Rd
man/accuracyMeasures.Rd
man/branchSplit.Rd
man/simulateDatExpr5Modules.Rd
man/binarizeCategoricalVariable.Rd
man/vectorizeMatrix.Rd
man/simulateEigengeneNetwork.Rd
man/sizeRestrictedClusterMerge.Rd
man/sigmoidAdjacencyFunction.Rd
man/goodSamplesGenesMS.Rd
man/plotCor.Rd
man/simulateModule.Rd
man/labeledBarplot.Rd
man/preservationNetworkConnectivity.Rd
man/newCorrelationOptions.Rd
man/newConsensusOptions.Rd
man/proportionsInAdmixture.Rd
man/plotModuleSignificance.Rd
man/fundamentalNetworkConcepts.Rd
man/BrainRegionMarkers.Rd
man/replaceMissing.Rd
man/multiGSub.Rd
man/cutreeStaticColor.Rd
man/modulePreservation.Rd
man/labeledHeatmap.multiPage.Rd
man/signumAdjacencyFunction.Rd
man/vectorTOM.Rd
man/moduleColor.getMEprefix.Rd
man/convertNumericColumnsToNumeric.Rd
man/newBlockInformation.Rd
man/coClustering.permutationTest.Rd
man/branchEigengeneDissim.Rd
man/qvalue.restricted.Rd
man/blockwiseModules.Rd
man/spaste.Rd
man/exportNetworkToVisANT.Rd
man/stratifiedBarplot.Rd
man/collapseRows.Rd
man/adjacency.splineReg.Rd
man/moduleMergeUsingKME.Rd
man/moduleNumber.Rd
man/votingLinearPredictor.Rd
man/GOenrichmentAnalysis.Rd
man/stdErr.Rd
man/adjacency.Rd
man/simulateDatExpr.Rd
man/BrainLists.Rd
man/checkAdjMat.Rd
man/corPvalueStudent.Rd
man/dynamicMergeCut.Rd
man/populationMeansInAdmixture.Rd
man/verboseBoxplot.Rd
man/plotMEpairs.Rd
man/hierarchicalConsensusKME.Rd
man/addGrid.Rd
man/chooseTopHubInEachModule.Rd
man/consensusMEDissimilarity.Rd
man/TOMplot.Rd
man/blockSize.Rd
man/conformityBasedNetworkConcepts.Rd
man/simulateSmallLayer.Rd
man/conformityDecomposition.Rd
man/hierarchicalMergeCloseModules.Rd
man/branchSplit.dissim.Rd
man/imputeByModule.Rd
man/hierarchicalConsensusCalculation.Rd
man/bicor.Rd
man/blockwiseIndividualTOMs.Rd
man/subsetTOM.Rd
man/qvalue.Rd
man/newConsensusTree.Rd
man/sampledHierarchicalConsensusModules.Rd
man/branchSplitFromStabilityLabels.Rd
man/mergeCloseModules.Rd
man/consensusTOM.Rd
man/signedKME.Rd
man/greenWhiteRed.Rd
man/pquantile.Rd
man/blueWhiteRed.Rd
man/consensusKME.Rd
man/networkConcepts.Rd
man/cor.Rd
man/mtd.setColnames.Rd
man/greenBlackRed.Rd
man/mtd.subset.Rd
man/labelPoints.Rd
man/coxRegressionResiduals.Rd
man/ImmunePathwayLists.Rd
man/plotDendroAndColors.Rd
man/returnGeneSetsAsList.Rd
man/TOMsimilarityFromExpr.Rd
man/correlationPreservation.Rd
man/goodSamplesGenes.Rd
man/goodGenes.Rd
man/transposeBigData.Rd
man/newNetworkOptions.Rd
man/chooseOneHubInEachModule.Rd
man/binarizeCategoricalColumns.Rd
