All functions

learnMarkersByPositiveProportionDifference()

Identify Markers by Largest Difference of Detection Rate in Clusters

learnSignatures()

Method to Learn Signatures from SummarizedExperiment

makeMarkerDetectionMatrix() makeMarkerProportionScree() makeSignatureDetectionMatrix() makeMarkerProportionMatrix()

Identify Markers and Signatures Present in Individual Samples

makeFilterExpression()

Build Filter Expressions from Sets

plotProportionPositive() predictByProportionPositive()

Identify the Dominant Signatures in Clusters of Samples

barplotPredictionCount() barplotPredictionProportion() reducedDimPrediction() predict(<GeneSetCollection>) predict(<Sets>)

Predict Method for Collection of Gene Set Signatures

shinyLabels()

Interactively Inspect and Name Gene Signatures

uniqueMarkerNames() uniqueSetNames()

Extract Unique Signature Names from a Collection of Gene Sets