DEprot.PCA class

DEprot.PCA class

Slots

PCA.metadata

metadata of the samples used in the PCA (subset of the original DEprot@metadata. Class: "ANY".

sample.subset

vector containing the list of samples analyzed. Class: "ANY".

data.used

vector indicating the type of counts used (imputed, normalized, raw). Class: "ANY".

prcomp

object of class prcomp (or output from pcaMethods::pca, method = "nipals") corresponding to the full PCA output. Class: "ANY".

PCs

data.frame combining the PC scores and the metadata table, useful for replotting. Class: "ANY".

importance

statistical summary table for the PCA analyses per each PC. Class: "ANY".

cumulative.PC.plot

ggplot object corresponding to out put of plot.PC.cumulative for this object. Class: "ANY".