predictClasses,CohortList,PCOSP_or_RLS_or_RGA-method {PDATK}R Documentation

Predict Survival Prognosis Classes and Risk Scores for A CohortList Using a PCOSP, RLSModel or RGAModel object.

Description

Predict Survival Prognosis Classes and Risk Scores for A CohortList Using a PCOSP, RLSModel or RGAModel object.

Usage

## S4 method for signature 'CohortList,PCOSP_or_RLS_or_RGA'
predictClasses(object, model, ...)

Arguments

object

A CohortList with SurvivalExperiments to predict classes for.

model

A trained PCOSP model to use for predicting classes.

...

Fall through arguments to BiocParallel::bplapply for configuring parallelization settings.

Value

A CohortList with the model predictions attached to each SurvivalExperiment in the metadata slot and the prob_good_survival column added to the colData slot.

Examples

data(sampleTrainedPCOSPmodel)
data(sampleCohortList)

# Set parallelization settings
BiocParallel::register(BiocParallel::SerialParam())

# Make predictions
PCOSPpredCohortList <- predictClasses(sampleCohortList[seq_len(2)],
  model=sampleTrainedPCOSPmodel)
head(colData(PCOSPpredCohortList[[1]]))


[Package PDATK version 1.2.0 Index]