Man pages for smorabit/hdWGCNA
hdWGCNA
| AssignTFRegulons | AssignTFRegulons |
| AvgModuleExpr | AverageModuleExpr |
| BinPseudotime | BinPseudotime |
| check_inputs | Check inputs |
| CheckSeurat5 | CheckSeurat5 |
| CheckWGCNAName | CheckWGCNAName |
| ComputeModuleEigengene | ComputeModuleEigengene |
| ConstructMetacells | ConstructMetacells |
| ConstructMetaspots | ConstructMetaspots |
| ConstructNetwork | ConstructNetwork |
| ConstructPseudobulk | ConstructPseudobulk |
| ConstructTFNetwork | ConstructTFNetwork |
| corSparse | Sparse matrix correlation |
| DimPlotMetacells | DimPlotMetacells |
| DoHubGeneHeatmap | Plots gene expression of hub genes as a heatmap |
| EnrichrBarPlot | EnrichrBarPlot |
| EnrichrDotPlot | EnrichrDotPlot |
| FindAllDMEs | FindAllDMEs |
| FindDifferentialRegulons | FindDifferentialRegulons |
| FindDMEs | FindDMEs |
| FindMajorIsoforms | FindMajorIsoforms |
| GetActiveWGCNA | GetActiveWGCNA |
| GetActiveWGCNAName | GetActiveWGCNAName |
| GetAvgModuleExpr | GetAvgModuleExpr |
| GetDatExpr | GetDatExpr |
| GetDegrees | GetDegrees |
| GetEnrichrRegulonTable | GetEnrichrRegulonTable |
| GetEnrichrTable | GetEnrichrTable |
| GetHubGenes | GetHubGenes |
| GetMELoadings | GetMELoadings |
| GetMEs | GetMEs |
| GetMetacellObject | GetMetacellObject |
| GetMetacellParams | GetMetacellParams |
| GetModulePreservation | GetModulePreservation |
| GetModules | GetModules |
| GetModuleScores | GetModuleScores |
| GetModuleTraitCorrelation | GetModuleTraitCorrelation |
| GetModuleUMAP | GetModuleUMAP |
| GetMotifMatrix | GetMotifMatrix |
| GetMotifOverlap | GetMotifOverlap |
| GetMotifs | GetMotifs |
| GetMotifScores | GetMotifScores |
| GetMotifTargets | GetMotifTargets |
| GetMultiExpr | GetMultiExpr |
| GetNetworkData | GetNetworkData |
| GetPFMList | GetPFMList |
| GetPowerTable | GetPowerTable |
| GetRegulonScores | GetRegulonScores |
| GetTFEval | GetTFEval |
| GetTFNetwork | GetTFNetwork |
| GetTFRegulons | GetTFRegulons |
| GetTFTargetGenes | GetTFTargetGenes |
| GetTOM | GetTOM |
| GetWGCNAGenes | GetWGCNAGenes |
| GetWGCNAParams | GetWGCNAParams |
| HubGeneNetworkPlot | HubGeneNetworkPlot |
| MetacellsByGroups | MetacellsByGroups |
| MetaspotsByGroups | MetaspotsByGroups |
| ModuleConnectivity | ModuleConnectivity |
| ModuleCorrelogram | ModuleCorrelogram |
| ModuleCorrNetwork | ModuleCorrNetworks |
| ModuleEigengenes | ModuleEigengenes |
| ModuleExprScore | ModuleExprScore |
| ModuleFeaturePlot | ModuleFeaturePlot |
| ModuleNetworkPlot | ModuleNetworkPlot |
| ModulePreservation | ModulePreservation |
| ModulePreservationNetRep | ModulePreservationNetRep |
| ModuleRadarPlot | ModuleRadarPlot |
| ModuleRegulatoryHeatmap | ModuleRegulatoryHeatmap |
| ModuleRegulatoryNetwork | ModuleRegulatoryNetwork |
| ModuleRegulatoryNetworkPlot | ModuleRegulatoryNetworkPlot |
| ModuleTopologyBarplot | ModuleTopologyBarplot |
| ModuleTopologyHeatmap | ModuleTopologyHeatmap |
| ModuleTraitCorrelation | ModuleTraitCorrelation' |
| ModuleUMAPPlot | ModuleUMAPPlot |
| MotifOverlapBarPlot | Displays the top n TFs in a set of modules as a bar plot |
| MotifScan | MotifScan |
| NormalizeMetacells | NormalizeMetacells |
| OverlapBarPlot | OverlapBarPlot |
| OverlapDotPlot | OverlapDotPlot |
| OverlapModulesDEGs | OverlapModulesDEGs |
| OverlapModulesMotifs | Overlap modules with TF target genes |
| PlotDendrogram | PlotDendrogram |
| PlotDifferentialRegulons | PlotDifferentialRegulons |
| PlotDMEsLollipop | PlotDMEsLollipop |
| PlotDMEsVolcano | PlotDMEsVolcano |
| PlotKMEs | PlotKMEs |
| PlotLollipop | PlotLollipop |
| PlotModulePreservation | PlotModulePreservation |
| PlotModulePreservationLollipop | PlotModulePreservationLollipop |
| PlotModuleTraitCorrelation | PlotModuleTraitCorrelation |
| PlotModuleTrajectory | PlotModuleTrajectory |
| PlotSoftPowers | PlotSoftPowers |
| ProjectModules | ProjectModules |
| ReassignModules | ReassignModules |
| RegulonBarPlot | RegulonBarPlot |
| RegulonScores | RegulonScores |
| ResetModuleColors | ResetModuleColors |
| ResetModuleNames | ResetModuleNames |
| RunEnrichr | RunEnrichr |
| RunEnrichrRegulons | RunEnrichrRegulons |
| RunHarmonyMetacells | RunHarmonyMetacells |
| RunModuleUMAP | RunModuleUMAP |
| RunPCAMetacells | RunPCAMetacells |
| RunUMAPMetacells | RunUMAPMetacells |
| scale01 | scale01 |
| ScaleMetacells | ScaleMetacells |
| SelectNetworkGenes | SelectNetworkGenes |
| SetActiveWGCNA | SetActiveWGCNA |
| SetAvgModuleExpr | SetAvgModuleExpr |
| SetDatExpr | SetDatExpr |
| SetDegrees | SetDegrees |
| SetEnrichrRegulonTable | SetEnrichRegulonTable |
| SetEnrichrTable | SetEnrichrTable |
| SetMELoadings | SetMELoadings |
| SetMEs | SetMEs |
| SetMetacellObject | SetMetacellObject |
| SetMetacellParams | SetMetacellParams |
| SetModulePreservation | SetModulePreservation |
| SetModules | SetModules |
| SetModuleScores | SetModuleScores |
| SetModuleTraitCorrelation | SetModuleTraitCorrelation |
| SetModuleUMAP | SetModuleUMAP |
| SetMotifMatrix | SetMotifMatrix |
| SetMotifOverlap | SetMotifOverlap |
| SetMotifs | SetMotifs |
| SetMotifScores | SetMotifScores |
| SetMotifTargets | SetMotifTargets |
| SetMultiExpr | SetMultiExpr |
| SetNetworkData | SetNetworkData |
| SetPFMList | SetPFMList |
| SetPowerTable | SetPowerTable |
| SetRegulonScores | SetRegulonScores |
| SetTFEval | SetTFEval |
| SetTFNetwork | SetTFNetwork |
| SetTFRegulons | SetTFRegulons |
| SetupForWGCNA | SetupForWGCNA |
| SetWGCNAGenes | SetWGCNAGenes |
| SetWGCNAParams | SetWGCNAParams |
| shuffle_points | shuffle_points |
| TestSoftPowers | TestSoftPowers |
| TestSoftPowersConsensus | TestSoftPowersConsensus |
| TFNetworkPlot | TFNetworkPlot |
| to_pseudobulk | Create a pseudobulk matrix |
| TransferModuleGenome | TransferModuleGenome |
| umap_theme | umap_theme |
