predictClasses,SurvivalExperiment,GeneFuModel-method {PDATK}

R Documentation

Use a Gene Signature Based Prediciton Model from the genefu Package to Predict Signature Scores for Each Sample.

Description

Use a Gene Signature Based Prediciton Model from the genefu Package to Predict Signature Scores for Each Sample.

Usage

## S4 method for signature 'SurvivalExperiment,GeneFuModel'
predictClasses(object, model, ..., annot = NA)

Arguments

object	A SurvivalExperiment to predict classes for.
model	A GeneFuModel object to predict classes with.
...	Fall through parameters to genefu::sig.score.
annot	A named parameter with annotations mapping from the gene identifiers in the genefu model.

Details

A signature score should be interpreted as unit-less continuous risk predictor.

Value

The SurvivalExperiment passed to the object argument with the genefu_score column added to the objects colData slot.

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