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.


[Package PDATK version 1.1.3 Index]