API for wjawaid/bglab
Berthold Gottgens lab scRNA seq
| Global functions | |
|---|---|
| DiffusionMap-class | Man page |
| Isomap-class | Man page |
| PCA-class | Man page |
| SCD-class | Man page |
| TSNE-class | Man page |
| addPath | Man page |
| addPath,SCD-method | Man page |
| addPath,reducedDim-method | Man page |
| addPheno | Man page |
| addPheno,SCD-method | Man page |
| applyGaussianKernelwithVariableSigma | Man page |
| applyMVP | Man page |
| bglab | Man page |
| clipboard | Man page |
| clustLouvain | Man page |
| colorGradient | Man page Source code |
| counts,SCD-method | Man page |
| deactivateFilters | Source code |
| diffuse | Man page |
| diffuse,SCD-method | Man page |
| diffuseMat | Man page |
| diffuseMat2 | Man page |
| diffuseProj | Man page |
| dim,SCD-method | Man page |
| doDE | Man page |
| doDESeq | Man page |
| eigenvals | Man page |
| eigenvals,DiffusionMap-method | Man page |
| eigenvals,reducedDim-method | Man page |
| eigenvecs | Man page |
| eigenvecs,DiffusionMap-method | Man page |
| eigenvecs,reducedDim-method | Man page |
| enrichr | Man page |
| estSizeFact | Man page |
| estSizeFact2 | Man page |
| excludeCells | Man page |
| excludeCells,SCD-method | Man page |
| exportToMatlab | Man page Source code |
| expressedGene | Man page |
| exprs,SCD-method | Man page |
| fData,SCD-method | Man page |
| facsPlot | Man page |
| fastDist | Man page Source code |
| filterCell | Man page |
| filterCell,SCD-method | Man page |
| filterCell<- | Man page |
| filterCell<-,SCD,logical-method | Man page |
| filterGene | Man page |
| filterGene,SCD-method | Man page |
| filterGene<- | Man page |
| filterGene<-,SCD,logical-method | Man page |
| filterQC | Man page |
| filterQC,SCD-method | Man page |
| filterQC<- | Man page |
| filterQC<-,SCD,logical-method | Man page |
| findCells | Man page |
| findGene | Man page Source code |
| findLouvain | Man page |
| findPath | Man page |
| findPath,SCD-method | Man page |
| geneDistribution | Man page |
| geneID2Name | Man page Source code |
| geneName2id | Man page Source code |
| getDiffMap | Man page |
| getDiffMap,SCD-method | Man page |
| getIsomap | Man page |
| getIsomap,SCD-method | Man page |
| getMST | Man page |
| getMST,SCD-method | Man page |
| getMST,reducedDim-method | Man page |
| getMVP | Man page |
| getPCA | Man page |
| getPCA,SCD-method | Man page |
| getPaths | Man page |
| getPaths,reducedDim-method | Man page |
| getTSNE | Man page |
| getTSNE,SCD-method | Man page |
| ggCol | Man page |
| heatmap.gottgens | Man page Source code |
| heatmap.minus | Man page |
| initialize,SCD-method | Man page |
| listEnrichrDbs | Man page |
| loadings,PCA-method | Man page |
| logVarGenes | Man page |
| markFailedQC | Man page |
| markFailedQC,SCD-method | Man page |
| markGOI | Man page Source code |
| memls | Man page |
| mst | Man page |
| mst,SCD-method | Man page |
| mst,reducedDim-method | Man page |
| multiGenes | Man page |
| neatLabels | Man page Source code |
| newSCD | Man page Source code |
| orderFrame | Man page Source code |
| pData,SCD-method | Man page |
| performQC | Man page |
| performQC,SCD-method | Man page |
| plot,SCD,ANY-method | Man page |
| plot3 | Man page |
| plot3,reducedDim-method | Man page |
| plotGene | Man page Source code |
| plotGeneProfile | Man page |
| plotLegend | Man page |
| plotPath3 | Man page |
| plotPath3,reducedDim-method | Man page |
| plotQC | Man page |
| plotTechVar | Man page |
| plotTree3 | Man page |
| prepData | Man page Source code |
| printEnrich | Man page |
| printGene | Man page Source code |
| qc | Man page |
| qc,SCD-method | Man page |
| qcFunc | Man page |
| read.qPCR | Man page Source code |
| reducedDim-class | Man page |
| removePath | Man page |
| removePath,SCD-method | Man page |
| removePath,reducedDim-method | Man page |
| resetCells | Man page |
| restoreFilters | Source code |
| runPCA | Man page |
| runPCA,SCD-method | Man page |
| runTSNE | Man page |
| runTSNE,SCD-method | Man page |
| saveFilters | Source code |
| selectCells | Man page |
| selectCells,SCD-method | Man page |
| selectVariableGenes | Man page |
| selectVariableGenes,SCD-method | Man page |
| selectionTray | Man page Source code |
| sf | Man page |
| sf,SCD-method | Man page |
| sf<- | Man page |
| sf<-,SCD,character,matrix-method | Man page |
| slidingAv | Man page |
| smoothGn | Man page |
| sparseMarkov | Man page |
| spikes | Man page |
| spikes,SCD-method | Man page |
| submap | Man page Source code |
| subsetData | Source code |
| techVar | Man page |
| techVar,SCD-method | Man page |
| techVarSub | Man page |
| useFilter | Man page |
| useFilter,SCD-method | Man page |
| useFilter<- | Man page |
| useFilter<-,SCD,logical-method | Man page |
| winsor | Man page |
| writeGeneList | Man page |
