# multiWGCNA

## Documentation for package ‘multiWGCNA’ version 1.10.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

bidirectionalBestMatches | Best matching modules
BuildTOMFlowDF | BuildTOMFlowDF
cleanDatExpr | cleanDatExpr
coexpressionLineGraph | Coexpression Line Graph
computeOverlapsFromWGCNA | computeOverlapsFromWGCNA
constructNetworks | constructNetworks: Construct all the weighted gene correlation networks
diffCoexpression | Differential co-expresison analysis
diffModuleExpression | Differential module expression
drawMultiWGCNAnetwork | Draw multiWGCNA network
GetDatExpr | Get expression data
getModule | name: Name of WGCNAobject
getPreservation | getPreservation
GetSignificantOverlap | Get significant overlap
iterate | iterate: Iterate function across networks
makeTraitTable | Generate a trait table from a sample table
makeTraitTable2 | Generate a trait table from a sample table (version 2)
moduleComparisonPlot | Module comparison plot
moduleExpressionPlot | Plots an expression profile for a module
ModuleFlowPlot | Module sankey diagram
ModuleFlowPlot2Way | Module sankey diagram
moduleToModuleHeatmap | Module to module heatmap
name | name: Name of WGCNAobject
overlapComparisons | Overlap comparisons
performANOVA | Perform ANOVA
permutationTestResults | Permutation test results
PlotMultiNodesTOMflow | PlotMultiNodesTOMflow
preservationComparisonPlot | Preservation Comparison Scatterplot
preservationComparisons | Preservation comparisons
PreservationPermutationTest | PreservationPermutationTest
PreservationScoreDistribution | PreservationScoreDistribution
runDME | Run differential module expression
summarizeResults | summarizeResults: Summarize results from a results list object
TOMFlowPlot | TOMFlowPlot
topNGenes | topNGenes: Top N genes of a module
WGCNA-class | The WGCNA Class