getSignatureLs {biosigner} | R Documentation

## Signatures selected by the models

### Description

List of 'S' (or 'S' and 'A') signatures for each classifier

### Usage

    getSignatureLs(object, tierC = c("S", "AS")[1], ...)

    ## S4 method for signature 'biosign'
    getSignatureLs(object, tierC = c("S", "AS")[1])

### Arguments

`object` | An S4 object of class `biosign`, created by the `biosign` function.
`tierC` | Character: defines whether signatures from the 'S' tier only (default) or the ('S' and 'A') tiers should be returned
`...` | Currently not used.

### Value

List of 'S' (or 'S' and 'A') signatures for each classifier

### Author(s)

Philippe Rinaudo and Etienne Thevenot (CEA)

### Examples

    ## loading the diaplasma dataset

    data(diaplasma)
    attach(diaplasma)

    ## restricting to a smaller dataset for this example

    featureSelVl <- variableMetadata[, "mzmed"] >= 490 & variableMetadata[, "mzmed"] < 500
    dataMatrix <- dataMatrix[, featureSelVl]
    variableMetadata <- variableMetadata[featureSelVl, ]

    ## signature selection for all 3 classifiers
    ## a bootI = 5 number of bootstraps is used for this example
    ## we recommend to keep the default bootI = 50 value for your analyzes

    set.seed(123)
    diaSign <- biosign(dataMatrix, sampleMetadata[, "type"], bootI = 5)

    ## individual boxplot of the selected signatures

    getSignatureLs(diaSign)

    detach(diaplasma)

[Package biosigner version 1.20.0 Index]