plot_pca: PCA plot

In iaradsouza1/MicroarrayMethods: Provide methods for microarray analysis

Description

PCA plot

Usage

plot_pca(eset, components, groups, type = NULL, batch = NULL,
  filename = NULL, ...)

Arguments

eset	ExpressionSet object with normalized expression values. Commonly the result of RMA normalization
components	A vector of length 2 containing which principal components to plot
groups	Column name corresponding to the groups of samples annotation on pheno data provided to the import_celfiles() function
type	Column name corresponding to the types of samples (control and treated samples) on pheno data provided to the import_celfiles() function (optional)
batch	Column name corresponding to each replicates on pheno data provided to the import_celfiles() function (optional)
filename	File name to save plot (pdf format)
...	Other arguments to be passed to pdf() function

Value

Plot of chosen PCs

iaradsouza1/MicroarrayMethods documentation built on Nov. 3, 2021, 2 p.m.