Reference-Based Single-Cell RNA-Seq Annotation

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Documentation for package ‘SingleR’ version 1.4.1

Help Pages

.mockRefData Mock data for examples
.mockTestData Mock data for examples
aggregateReference Aggregate reference samples
BlueprintEncodeData Reference dataset extractors
classifySingleR Classify cells with SingleR
combineCommonResults Combine SingleR results with common genes
combineRecomputedResults Combine SingleR results with recomputation
DatabaseImmuneCellExpressionData Reference dataset extractors
datasets Reference dataset extractors
getClassicMarkers Get classic markers
getDeltaFromMedian Compute the difference from median
HumanPrimaryCellAtlasData Reference dataset extractors
ImmGenData Reference dataset extractors
matchReferences Match labels from two references
MonacoImmuneData Reference dataset extractors
MouseRNAseqData Reference dataset extractors
NovershternHematopoieticData Reference dataset extractors
plotDeltaDistribution Plot delta distributions
plotScoreDistribution Plot score distributions
plotScoreHeatmap Plot a score heatmap
pruneScores Prune out low-quality assignments
SingleR Annotate scRNA-seq data
trainSingleR Train the SingleR classifier