R: Decorate PCA Score Plot of a Spectra Object

plotScoresDecoration {ChemoSpec} | R Documentation

## Decorate PCA Score Plot of a Spectra Object

### Description

Utility function to carry out misc. labeling functions on the PCA score plot of a `Spectra` object. An internal function, not generally called by the user.

### Usage

    plotScoresDecoration(spectra, pca, pcs = c(1, 2), tol = "none")

### Arguments

`spectra` | An object of S3 class `Spectra`.
`pca` | An object of class `prcomp`, modified to include a list element called `$method`, a character string describing the pre-processing carried out and the type of PCA performed (it appears on the plot). This is automatically provided if `ChemoSpec` functions `c_pcaSpectra` or `r_pcaSpectra` were used to create `pca`.
`pcs` | A vector of two integers specifying the PCA scores to plot.
`tol` | A number describing the fraction of points to be labeled. `tol = 1.0` labels all the points; `tol = 0.05` labels the most extreme 5 percent.

### Value

None. The score plot is decorated.

### Author(s)

Bryan A. Hanson, DePauw University.

### References

https://github.com/bryanhanson/ChemoSpec

[Package ChemoSpec version 4.4.97 Index]