Files in milescsmith/WGCNA
Weighted Correlation Network Analysis
.Rbuildignore
.Rprofile
.gitignore
Changelog
DESCRIPTION
LICENSE
MD5
NAMESPACE
NAMESPACE.old
R/AFcorMI.R
R/Functions-fromSimilarity.R
R/Functions-multiData.R
R/Functions.R
R/GOenrichmentAnalysis.R
R/TrueTrait.R
R/accuracyMeasures.R
R/adjacency.polyReg.R
R/adjacency.splineReg.R
R/blockwiseData.R
R/blockwiseModulesC.R
R/branchSplit.R
R/coClustering.R
R/collapseRows.R
R/collapseRowsUsingKME.R
R/conformityDecomposition.R
R/consensusCalculations.R
R/consensusDissTOMandTree.R
R/consensusRepresentatives.R
R/consensusTOM.R
R/corAndPvalue.R
R/corFunctions.R
R/coxRegressionResiduals.R
R/dendrogramAdjustmentFunctions.R
R/empiricalBayesLM.R
R/exportFunctions.R
R/heatmapWithLegend.R
R/hierarchicalConsensusModules.R
R/internalConstants.R
R/kMEcomparisonScatterplot.R
R/labelPoints.R
R/matchLabels.R
R/moduleMergeUsingKME.R
R/modulePreservation.R
R/multiData.R
R/mutualInfoAdjacency.R
R/nearestCentroidPredictor.R
R/networkConcepts.R
R/overlapTableUsingKME.R
R/plotDendrogram.R
R/populationMeansInAdmixture.R
R/proportionsInAdmixture.R
R/quantileC.R
R/qvalue.R
R/returnGeneSetsAsList.R
R/sampledModules.R
R/smaFunctions.R
R/standardScreeningBinaryTrait.R
R/stratifiedBarplot.R
R/transposeBigData.R
R/useNThreads.R
R/userListEnrichment.R
R/verboseIplot.R
R/votingLinearPredictor.R
R/zzz.R
README.md
Rplot.jpeg
WGCNA.Rproj
data/BloodLists.rda
data/BrainLists.rda
data/BrainRegionMarkers.rda
data/ClinicalTraits.csv
data/FemaleLiver-01-dataInput.RData
data/GeneAnnotation.csv
data/GeneResultsNetworkScreening.csv
data/GeneSummaryTutorial.csv
data/ImmunePathwayLists.rda
data/LiverFemale3600.csv
data/LiverMale3600.csv
data/MEResultsNetworkScreening.csv
data/MicroarrayDataTutorial.csv
data/PWLists.rda
data/SCsLists.rda
data/TraitsTutorial.csv
data/consensusAnalysis-CombinedNetworkResults.csv
inst/CITATION
man/TOMdist.Rd
man/WGCNAnThreads.Rd
man/allocateJobs.Rd
man/allowWGCNAThreads.Rd
man/blockSize.Rd
man/blockwiseModules.Rd
man/disableWGCNAThreads.Rd
man/dot-accuracyStatistics.Rd
man/dot-checkAdj.Rd
man/dot-checkAvailableMemory.Rd
man/dot-checkExpr.Rd
man/dot-clusterCoeff.Rd
man/dot-combineAdj.Rd
man/dot-computeLinksInNeighbors.Rd
man/dot-computeSqDiagSum.Rd
man/dot-coreCalcForAdj.Rd
man/dot-coreCalcForExpr.Rd
man/dot-cvPresent.Rd
man/dot-getSVDs.Rd
man/dot-kIM.Rd
man/dot-modulePreservationInternal.Rd
man/dot-nNAColors.Rd
man/dot-nProcessorsOnline.Rd
man/dot-pValueFromZ.Rd
man/dot-qValueFromP.Rd
man/dot-useNThreads.Rd
man/enableWGCNAThreads.Rd
man/moduleEigengenes.Rd
man/modulePreservation.Rd
man/pickSoftThreshold.Rd
src/Makevars
src/Makevars.win
src/array.h
src/arrayGeneric.h
src/compiling.h
src/conditionalThreading.h
src/corFunctions-typeDefs.h
src/corFunctions-utils.c
src/corFunctions-utils.h
src/corFunctions.c
src/corFunctions.h
src/exceptions.h
src/myMatrixMultiplication.c
src/myMatrixMultiplication.h
src/networkFunctions.c
src/parallelQuantile.cc
src/parallelQuantile.h
src/parallelQuantile_stdC.h
src/pivot.c
src/pivot.h
src/pivot_declarations.h
vignettes/FemaleLiver-01-dataInput.Rmd
vignettes/FemaleLiver-01-dataInput.nb.html
vignettes/FemaleLiver-02-networkConstr-auto.Rmd
vignettes/FemaleLiver-02-networkConstr-auto.html
vignettes/GeneResultsNetworkScreening.csv
vignettes/GeneSummaryTutorial.csv
vignettes/MEResultsNetworkScreening.csv
vignettes/MicroarrayDataTutorial.csv
vignettes/Simulated-01-dataSimulation.Rmd
vignettes/Simulated-01-dataSimulation.nb.html
vignettes/TraitsTutorial.csv
vignettes/Using simulated data to evaluate different module detection methods and gene screening approaches.Rmd
vignettes/Using simulated data to evaluate different module detection methods and gene screening approaches.nb.html
vignettes/preview.Rmd
