| .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 |
| rebuildIndex | Rebuild the index |
| SingleR | Annotate scRNA-seq data |
| trainSingleR | Train the SingleR classifier |