AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)

[Up] [Top]

Documentation for package ‘AUCell’ version 1.10.0

Help Pages

aucellResults Wrapper to the matrix that stores the AUC or the cell rankings.
aucellResults-class Wrapper to the matrix that stores the AUC or the cell rankings.
AUCell_buildRankings Build gene expression rankings for each cell
AUCell_buildRankings-method Build gene expression rankings for each cell
AUCell_calcAUC Calculate AUC
AUCell_calcAUC-method Calculate AUC
AUCell_createViewerApp Create AUCell viewer app
AUCell_exploreThresholds AUCell_exploreThresholds
AUCell_plotHist Plot AUC histogram
AUCell_plotTSNE Plot
cbind Wrapper to the matrix that stores the AUC or the cell rankings.
cbind-method Wrapper to the matrix that stores the AUC or the cell rankings.
getAssignments AUCell_exploreThresholds
getAUC Wrapper to the matrix that stores the AUC or the cell rankings.
getAUC-method Wrapper to the matrix that stores the AUC or the cell rankings.
getRanking Wrapper to the matrix that stores the AUC or the cell rankings.
getRanking-method Wrapper to the matrix that stores the AUC or the cell rankings.
getThresholdSelected AUCell_exploreThresholds
nGenes GeneSet methods
nGenes-method GeneSet methods
orderAUC orderAUC
plotGeneCount plotGeneCount
plotTsne_cellProps plotTsne_cellProps
rbind Wrapper to the matrix that stores the AUC or the cell rankings.
rbind-method Wrapper to the matrix that stores the AUC or the cell rankings.
setGeneSetNames GeneSet methods
setGeneSetNames-method GeneSet methods
show Wrapper to the matrix that stores the AUC or the cell rankings.
show-method Wrapper to the matrix that stores the AUC or the cell rankings.
subsetGeneSets GeneSet methods
subsetGeneSets-method GeneSet methods
updateAucellResults Update AUCell results