classifyResults: Precomputed list of results for a calls to 'sigCheckRandom'...

In SigCheck: Check a gene signature's prognostic performance against random signatures, known signatures, and permuted data/metadata

Description

This object represents the results lists returned by calls to sigCheckRandom and sigCheckKnown. It is used by the vignette accompanying the SigCheck package as an example result. It was derived by running the code in the example below. It loads to object, slassifyRandom and classifyKnown.

Usage

data(classifyResults)

Examples

## Not run: 
# This is how classifyResults is built
library(breastCancerNKI)
data(nki)
nki = nki[,!is.na(nki$e.dmfs)]
data(knownSignatures)
check <- sigCheck(nki, classes="e.dmfs",
                  signature=knownSignatures$cancer$VANTVEER,
                  annotation="HUGO.gene.symbol",
                  validationSamples=101:ncol(nki),
                  scoreMethod="classifier")
                  
classifyRandom <- sigCheckRandom(check, iterations=1000)
classifyKnown <- sigCheckKnown(check)

## End(Not run)

# Example usage of classifyResults
data(classifyResults)
par(mfrow=c(1,2))
sigCheckPlot(classifyRandom, classifier=TRUE)
sigCheckPlot(classifyKnown, classifier=TRUE)

SigCheck documentation built on Nov. 8, 2020, 6:38 p.m.