API for mayer-lab/SeuratForMayer2018
Seurat : R Toolkit for Single Cell Genomics
| Global functions | |
|---|---|
| AddImputedScore | Man page |
| AddMetaData | Man page |
| AddModuleScore | Man page |
| AddSamples | Man page |
| AddSmoothedScore | Man page |
| AlignSubspace | Man page |
| AssessNodes | Man page |
| AssessSplit | Man page |
| AverageDetectionRate | Man page |
| AverageExpression | Man page |
| AveragePCA | Man page |
| BlackAndWhite | Man page |
| BuildClusterTree | Man page |
| BuildRFClassifier | Man page |
| BuildSNN | Man page |
| CalcVarExpRatio | Man page |
| CaseMatch | Man page |
| CellCycleScoring | Man page |
| CellPlot | Man page |
| ClassifyCells | Man page |
| ColorTSNESplit | Man page |
| CreateSeuratObject | Man page |
| CustomDistance | Man page |
| CustomPalette | Man page |
| DBClustDimension | Man page |
| DBclust_dimension | Man page |
| DMEmbed | Man page |
| DMLoad | Man page |
| DMPlot | Man page |
| DarkTheme | Man page |
| DiffExpTest | Man page |
| DiffTTest | Man page |
| DimElbowPlot | Man page |
| DimHeatmap | Man page |
| DimPlot | Man page |
| DimTopCells | Man page |
| DimTopGenes | Man page |
| DoHeatmap | Man page |
| DoKMeans | Man page |
| DotPlot | Man page |
| DotPlotOld | Man page |
| ExpMean | Man page |
| ExpSD | Man page |
| ExpVar | Man page |
| ExtractField | Man page |
| FastWhichCells | Man page |
| FeatureHeatmap | Man page |
| FeatureLocator | Man page |
| FeaturePlot | Man page |
| FetchData | Man page |
| FilterCells | Man page |
| FindAllMarkers | Man page |
| FindAllMarkersNode | Man page |
| FindClusters | Man page |
| FindConservedMarkers | Man page |
| FindMarkers | Man page |
| FindMarkersNode | Man page |
| FindVariableGenes | Man page |
| FitGeneK | Man page |
| GenePlot | Man page |
| GenesInCluster | Man page |
| GetAssayData | Man page |
| GetCellEmbeddings | Man page |
| GetCentroids | Man page |
| GetClusters | Man page |
| GetDimReduction | Man page |
| GetGeneLoadings | Man page |
| HeatmapNode | Man page |
| HoverLocator | Man page |
| ICA | Man page |
| ICAEmbed | Man page |
| ICALoad | Man page |
| ICAPlot | Man page |
| ICHeatmap | Man page |
| ICTopCells | Man page |
| ICTopGenes | Man page |
| InitialMapping | Man page |
| JackStraw | Man page |
| JackStrawPlot | Man page |
| JoyPlot | Man page |
| KClustDimension | Man page |
| KMeansHeatmap | Man page |
| Kclust_dimension | Man page |
| LogNormalize | Man page |
| LogVMR | Man page |
| MakeSparse | Man page |
| MarkerTest | Man page |
| MatrixRowShuffle | Man page |
| MeanVarPlot | Man page |
| MergeNode | Man page |
| MergeSeurat | Man page |
| MinMax | Man page |
| MultiModal_CCA | Man page |
| NegBinomDETest | Man page |
| NegBinomRegDETest | Man page |
| NodeHeatmap | Man page |
| NormalizeData | Man page |
| NumberClusters | Man page |
| OldDoHeatmap | Man page |
| PCA | Man page |
| PCAEmbed | Man page |
| PCALoad | Man page |
| PCAPlot | Man page |
| PCASigGenes | Man page |
| PCElbowPlot | Man page |
| PCHeatmap | Man page |
| PCTopCells | Man page |
| PCTopGenes | Man page |
| PlotClusterTree | Man page |
| PoissonDETest | Man page |
| PosteriorPlot | Man page |
| PrintAlignSubspaceParams | Man page |
| PrintCCAParams | Man page |
| PrintCalcParams | Man page |
| PrintCalcVarExpRatioParams | Man page |
| PrintDMParams | Man page |
| PrintDim | Man page |
| PrintFindClustersParams | Man page |
| PrintICA | Man page |
| PrintICAParams | Man page |
| PrintPCA | Man page |
| PrintPCAParams | Man page |
| PrintSNNParams | Man page |
| PrintTSNEParams | Man page |
| ProjectDim | Man page |
| ProjectPCA | Man page |
| PurpleAndYellow | Man page |
| Read10X | Man page |
| RefinedMapping | Man page |
| RegressOut | Man page |
| RegressOutResid | Man page |
| RemoveFromTable | Man page |
| RenameIdent | Man page |
| ReorderIdent | Man page |
| RunCCA | Man page |
| RunDiffusion | Man page |
| RunICA | Man page |
| RunPCA | Man page |
| RunTSNE | Man page |
| SampleUMI | Man page |
| SaveClusters | Man page |
| ScaleData | Man page |
| ScaleDataR | Man page |
| SetAllIdent | Man page |
| SetAssayData | Man page |
| SetClusters | Man page |
| SetDimReduction | Man page |
| SetIdent | Man page |
| Seurat-deprecated | Man page |
| Shuffle | Man page |
| SplitDotPlotGG | Man page |
| StashIdent | Man page |
| SubsetColumn | Man page |
| SubsetData | Man page |
| SubsetRow | Man page |
| TSNEPlot | Man page |
| TobitTest | Man page |
| UpdateSeuratObject | Man page |
| ValidateClusters | Man page |
| ValidateSpecificClusters | Man page |
| VariableGenePlot | Man page |
| VizClassification | Man page |
| VizDimReduction | Man page |
| VizICA | Man page |
| VizPCA | Man page |
| VlnPlot | Man page |
| WhichCells | Man page |
| addImputedScore | Man page |
| addMetaData | Man page |
| addSmoothedScore | Man page |
| add_samples | Man page |
| average.expression | Man page |
| average.pca | Man page |
| batch.gene | Man page |
| buildClusterTree | Man page |
| calc.insitu | Man page |
| calcNoiseModels | Man page |
| calinskiPlot | Man page |
| cell.cor.matrix | Man page |
| cellPlot | Man page |
| cluster.alpha | Man page |
| diff.t.test | Man page |
| diffExp.test | Man page |
| dim.plot | Man page |
| doHeatMap | Man page |
| doKMeans | Man page |
| dot.plot | Man page |
| feature.heatmap | Man page |
| feature.plot | Man page |
| feature.plot.keynote | Man page |
| fetch.data | Man page |
| find.markers | Man page |
| find.markers.node | Man page |
| find_all_markers | Man page |
| fit.gene.k | Man page |
| fit.gene.mix | Man page |
| gene.cor.matrix | Man page |
| genePlot | Man page |
| geneScorePlot | Man page |
| genes.in.cluster | Man page |
| get.centroids | Man page |
| getNewScore | Man page |
| icHeatmap | Man page |
| icTopGenes | Man page |
| ica | Man page |
| ica.plot | Man page |
| initial.mapping | Man page |
| jackRandom | Man page |
| jackStraw | Man page |
| jackStraw.permutation.test | Man page |
| jackStrawFull | Man page |
| jackStrawMC | Man page |
| jackStrawPlot | Man page |
| kMeansHeatmap | Man page |
| map.cell | Man page |
| marker.test | Man page |
| mean.var.plot | Man page |
| minusc | Man page |
| minusr | Man page |
| pcHeatmap | Man page |
| pcTopCells | Man page |
| pcTopGenes | Man page |
| pca | Man page |
| pca.plot | Man page |
| pca.sig.genes | Man page |
| plotClusterTree | Man page |
| plotNoiseModel | Man page |
| posterior.plot | Man page |
| print.pca | Man page |
| project.pca | Man page |
| project.samples | Man page |
| refined.mapping | Man page |
| regulatorScore | Man page |
| removePC | Man page |
| rename.ident | Man page |
| reorder.ident | Man page |
| run_diffusion | Man page |
| run_tsne | Man page |
| set.all.ident | Man page |
| set.ident | Man page |
| seurat | Man page |
| seurat-class | Man page |
| show | Man page |
| show,seurat-method | Man page |
| situ3d | Man page |
| spatial.de | Man page |
| subsetCells | Man page |
| subsetData | Man page |
| tnse.plot | Man page |
| tobit.test | Man page |
| tsne.plot | Man page |
| viz.ica | Man page |
| viz.pca | Man page |
| vlnPlot | Man page |
| which.cells | Man page |
| writ.table | Man page |
| zf.anchor.render | Man page |
| zf.cells.render | Man page |
| zf.insitu.dorsal | Man page |
| zf.insitu.lateral | Man page |
| zf.insitu.side | Man page |
| zf.insitu.vec.lateral | Man page |
| zf.insitu.ventral | Man page |
| zfRenderSeurat | Man page |
