figure_pca: PCA compound figure.

In brgordon17/coralclass: Metabolomics Classification of Stressed Coral From Heron Island 2011

Description

figure_pca() reproduces the LCMS and NMR PCA scores compound figure in Benjamin Gordon's PhD thesis.

Usage

figure_pca(scale = FALSE, center = TRUE, view.plot = TRUE,
  save.plot = FALSE, plot.name = "pca_figure", seed = 1978)

Arguments

scale	Logical indicating if scaling should be applied in PCA
center	Logical indicatinf if the data should be centered
view.plot	Logical indicating if the plot should be printed to the plot viewer.
save.plot	Logical indicating if the plot should be saved to ./figs/.
plot.name	Name of plot.
seed	Integer the sets the state of the random number generator

Details

figure_pca() loads the saved gg objects in ./inst/extdata/; extracts the legend from the mzpca plot; adds plot labels (a and b) and saves the plot to ./figs/ as a .pdf file.

Note

Although this function is exported, figure_pca() was not intended to be used outside of this package.

Author(s)

Benjamin R. Gordon

See Also

gridExtra-package ggplot grid-package

brgordon17/coralclass documentation built on June 15, 2020, 9:21 p.m.