aggregateScoreChangePerGene | Aggregate Score Change per Gene |
arrangePlots | Arrange Plots |
assignCellsByScores | Assign Cells By Scores |
classificationTreeToDf | Classification Tree to DataFrame |
createClassificationTree | Create Classification Tree |
deriveHierarchy | Derive Hierarchy |
diffuseGraph | Diffuse Graph |
diffuseScorePerType | Diffuse Score per Type |
extractCellTypeProbs | Extract Cell Type Probabilities |
extractMarkersFromSubtypes | Extract Markers From Subtypes |
getAnnotationPerParent | Get Annotation Per Parent |
getCellTypeScoreInfo | Get Cell Type Score Info |
getClassificationData | Get Classification data |
getMarkerScoreInfo | Get Marker Score Info |
getMarkerScoresPerCellType | Return initial scores of each cell type for each cell |
getTopNegativeGenes | Get Top Negative Genes |
hierarchyToClassificationTree | Hierarchy to Classification Tree |
markerListToMarkup | Marker List to Markup |
mergeAnnotationByLevels | Merge Annotation By Levels |
mergeAnnotationToLevel | Merge Annotation to Level |
mergeScoreInfos | Merge Score Infos |
mergeScores | Merge Scores |
normalizeTCWithFeatures | Normalize Total Count with Features |
normalizeTfIdfWithFeatures | Normalize TF-IDF with Features |
parseMarkerFile | Parse Marker File |
plapply | Parallel Lapply |
plotAssignmentScores | Plot Assignment Scores |
plotGeneExpression | Plot gene expression on cell embedding |
plotMarkerListViolinMap | Plot expression violin map for given marker list |
plotOneUncertaintyPerClust | Plot One Uncertainty per Cluster |
plotSubtypeMarkers | Plot Subtype Markers |
plotTypeMarkers | Plot Type Markers |
plotUncertaintyPerCell | Uncertainty scatterplots per cell |
plotUncertaintyPerClust | Uncertainty barplots per cluster |
prepareDeInfo | Prepare DE Info |
scoreCellUncertaintyPerLevel | Score Cell Uncertainty Per Level |
scoreClusterUncertaintyPerLevel | Score Cluster Uncertainty Per Level |
scorePerCellUncertainty | Score Per Cell Uncertainty |
selectMarkersPerType | Select Markers per Type |
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