API for mzinkgraf/ConsensusCoExpression
What the package does (short line)
| Global functions | |
|---|---|
| .CoreScatter | Source code |
| .CoreSize | Source code |
| .NewBranch | Source code |
| .assignModuleColor | Source code |
| .assignModuleNumber | Source code |
| .cutTreeStatic | Source code |
| .extend | Source code |
| .locateCluster | Source code |
| .processIndividualCluster | Source code |
| .reverseRows | Source code |
| .reverseVector | Source code |
| .runlengthSign | Source code |
| .shiftSequence | Source code |
| AddTraitToPCs | Source code |
| AdjacencyMatrix | Source code |
| AdjacencyMatrixR | Source code |
| AverageExprFrame | Source code |
| AverageExprMatrix | Source code |
| AverageModules | Source code |
| BestHeightCut | Source code |
| CausalChildren | Source code |
| CheckSets | Source code |
| ClusterCoef.fun | Source code |
| ColorsFromLabels | Source code |
| ConsensusCoExpression | Man page |
| ConsensusCoExpression-package | Man page |
| ConsensusDiagnostics | Source code |
| ConsensusModules | Source code |
| ConsensusOrderPCs | Source code |
| ConsensusPCDissimilarity | Source code |
| CorrelationPreservation | Source code |
| DegreeInOut | Source code |
| DisplayColors | Source code |
| EvaluateClusters | Source code |
| GOLabels | Source code |
| GOgenes | Source code |
| GetConnectivity | Source code |
| GetModules | Source code |
| GetNetwork | Source code |
| GreenBlackRed | Source code |
| GreenWhiteRed | Source code |
| HubGeneSignificance | Source code |
| ImputeExprData | Source code |
| IntersectModules | Source code |
| KeepCommonProbes | Source code |
| MergeCloseModules | Source code |
| ModuleEnrichment1 | Source code |
| ModuleNumber | Source code |
| ModulePCs | Source code |
| ModulePrinComps1 | Source code |
| ModulePrincipalComponents | Source code |
| NetworkModulePCs | Source code |
| NetworkScreening1 | Source code |
| NormalizeLabels | Source code |
| OrderNames | Source code |
| OrderPCs | Source code |
| PeakTypeByDiff | Source code |
| PickHardThreshold | Source code |
| PickSoftThreshold | Source code |
| PlotCorMEMsAndDendros | Source code |
| PlotCorPCs | Source code |
| PlotCorPCsAndDendros | Source code |
| PlotCorPCs_1 | Source code |
| PlotExpPCsCor | Source code |
| PowerConnectivities | Source code |
| PrintSpaces | Source code |
| ProbePermutationTest | Source code |
| Rand2 | Source code |
| RedWhiteGreen | Source code Source code |
| ReverseRows | Source code Source code |
| ReverseVector | Source code Source code |
| ScaleFreeAnalysis | Source code |
| ScaleFreePlot1 | Source code |
| SelectGenesByConnectivity | Source code |
| SelectGenesByMinConnectivity | Source code |
| SelectGenesByRestrConnectivity | Source code |
| SelectTraits | Source code Source code |
| SetConsensusModules | Source code |
| SetConsensusModules2 | Source code |
| SetCorrelationPreservation | Source code |
| SignedTOMdist | Source code |
| SizeWindow | Source code |
| SoftConnectivity | Source code |
| StandardScreening1 | Source code |
| TOMdist1 | Source code |
| TOMdistROW | Source code |
| TOMkdist1 | Source code |
| TOMplot1 | Source code |
| TOMplot2 | Source code |
| TrafoCorMatrix | Source code |
| WithinModuleAnalysis1 | Source code |
| WithinModuleCindex1 | Source code |
| accuraciesFnc | Source code |
| addErrorBars.xy | Source code |
| addOrnaments | Source code |
| allocateJobs | Source code |
| alternatingAngles | Source code |
| atGO2Potri | Source code |
| atGO2PotriAnno | Source code |
| barplotArray | Source code |
| bicor.original | Source code |
| bicorw | Source code |
| bicov.original | Source code |
| bicovw | Source code |
| brace.horizontal | Source code |
| checkMultiMEMs | Source code |
| checkSets | Source code |
| chiSquare.table | Source code |
| choosenew | Source code |
| circlePlot | Source code |
| collectGarbage | Source code |
| collect_garbage | Source code |
| consensusMEDissimilarity | Source code |
| consensusOrderMEMs | Source code |
| consensusOrderMEs | Source code |
| corMatMat | Source code |
| corMats | Source code |
| corVMat | Source code |
| cutreeDynamic | Source code |
| cutreeDynamic.1 | Source code |
| cutreeDynamicTree | Source code |
| cutreeHybrid | Source code |
| dendrogramOrderings | Source code |
| distributionOnSNPs2 | Source code |
| drawEllipse | Source code |
| drawRectangle | Source code |
| entrez2geneSymbol | Source code |
| eps | Source code |
| err.bp | Source code |
| evalInvDist | Source code |
| fisherPvector | Source code |
| fixDataStructure | Source code |
| fixLabels | Source code |
| grey2red | Source code |
| hclustplot1 | Source code |
| hclustplotn | Source code |
| indentSpaces | Source code |
| initLib | Source code |
| intervalOverlap | Source code |
| invertEmpiricalDistribution | Source code |
| isMultiData | Source code |
| kME | Source code |
| kWithinModule | Source code |
| labelPosition | Source code |
| labeledBarplot2 | Source code |
| labeledBoxplot | Source code |
| labeledPlot | Source code |
| labels2colors | Source code |
| legendClean | Source code |
| linAge | Source code |
| linDate | Source code |
| linearizeDate | Source code |
| list2multiData | Source code |
| logTrafo | Source code |
| makeCross | Source code |
| matrixPCor | Source code |
| mean1 | Source code |
| meanw | Source code |
| medianw | Source code |
| merge2Clusters | Source code |
| mergeCloseModules | Source code |
| minWhichMin | Source code |
| moduleEigenMatrices | Source code |
| moduleEigengenes | Source code |
| moduleHeatmapAndEigengeneBarplot | Source code |
| moduleNumber | Source code |
| modulecolor2 | Source code |
| multiData.apply | Source code |
| multiData.mapply | Source code |
| multiData.rbindSelf | Source code |
| multiData.simplify | Source code |
| multiData.subset | Source code |
| multiData2list | Source code |
| multiLev2numeric | Source code |
| multiSetMEs | Source code |
| naiveAccuracyFnc | Source code |
| nearestSNP | Source code |
| networkPlot | Source code |
| networkPlot.hierarchical | Source code |
| normalizeAngle | Source code |
| normalizeLabels | Source code |
| orderMEMs | Source code |
| orderMEs | Source code |
| outlierMeasure | Source code |
| outliers | Source code |
| panel.cor | Source code |
| panel.cor1 | Source code |
| panel.hist | Source code |
| peakRegions | Source code |
| peaks2genes | Source code |
| plotConnectivityGeneSignif1 | Source code |
| plotEnrichmentBarplot | Source code |
| plotEnrichments | Source code |
| plotEnrichments.barplot | Source code |
| plotHclustColors | Source code |
| plotHistogramAndCF | Source code |
| plotQTL | Source code |
| pointToLabelDist | Source code |
| predictvals | Source code |
| prependZeros | Source code |
| prettyNamesForMetaAnalysis | Source code |
| print.flush | Source code |
| printFlush | Source code |
| propVarExplained | Source code |
| qtlPeaks | Source code |
| replaceNA | Source code |
| rowConsensus | Source code |
| scaleToRange | Source code |
| scatterplot1 | Source code |
| shortenLabels | Source code |
| sigmoid1 | Source code |
| signum1 | Source code |
| simulateCausal | Source code |
| smoothGauss | Source code |
| spaste | Source code |
| standardColors | Source code |
| stderr1 | Source code Source code |
| stretchLimits | Source code |
| subsetMEMs | Source code |
| table2.allLevels | Source code |
| toDegrees | Source code |
| toRadians | Source code |
| topEnrichment | Source code |
| validationSuccess | Source code |
| validationSuccess.ext | Source code |
| var1 | Source code |
| varNames | Source code |
| verboseMultiplot | Source code |
| verbosePairs | Source code |
| zeo | Source code |
