PCAElbowPlot {ILoReg} | R Documentation

## Elbow plot of the standard deviations of the principal components

### Description

Draw an elbow plot of the standard deviations of the principal components to deduce an appropriate value for p.

### Usage

    PCAElbowPlot.SingleCellExperiment(object, return.plot)

    ## S4 method for signature 'SingleCellExperiment'
    PCAElbowPlot(object, return.plot = FALSE)

### Arguments

`object` | object of class 'iloreg'
`return.plot` | logical indicating if the ggplot2 object should be returned (default FALSE)

### Value

ggplot2 object if return.plot=TRUE

### Examples

    library(SingleCellExperiment)
    sce <- SingleCellExperiment(assays = list(logcounts = pbmc3k_500))
    sce <- PrepareILoReg(sce)
    ## These settings are just to accelerate the example, use the defaults.
    sce <- RunParallelICP(sce,L=2,threads=1,C=0.1,k=5,r=1)
    sce <- RunPCA(sce,p=5)
    PCAElbowPlot(sce)

[Package ILoReg version 1.0.0 Index]