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Principal Component Analysis of LIBS Spectra

Source: R/chemometrics.R
ls_pca.Rd

Performs PCA on the intensity matrix of a ls_dataset().

Usage

ls_pca(dataset, n_components = 10, scale = TRUE, center = TRUE)

Arguments

dataset

A ls_dataset() object.

n_components

Integer. Number of PCs to retain. Default 10.

scale

Logical. Scale variables to unit variance. Default TRUE.

center

Logical. Center variables. Default TRUE.

Value

A list with S3 class libs_pca containing: scores (matrix: spectra x PCs), loadings (matrix: channels x PCs), sdev, variance_explained (fraction), cumulative_variance, wavelength, sample_info, pca_obj.

Examples

ds <- ls_example_data("tissue")
pca <- ls_pca(ds, n_components = 5)
pca$variance_explained
#> [1] 0.51563826 0.14653577 0.04380068 0.04138021 0.04014311