\name{pcaRes}
\title{Class for representing a PCA result}
\description{This is a class representation of a PCA result}
\details{\bold{Creating Objects}\cr
\code{new("pcaRes", scores=[the scores], loadings=[the loadings],
nPcs=[amount of PCs], R2cum=[cumulative R2], nObs=[amount of
observations], nVar=[amount of variables], R2=[R2 for each
individual PC], sDev=[stdev for each individual PC],
centered=[was data centered], center=[original means],
varLimit=[what variance limit was exceeded], method=[method used to
calculate PCA], missing=[amount of NAs], 
completeObs=[estimated complete observations])}

\bold{Slots}\cr
\describe{
\item{scores}{"matrix",  the calculated scores}
\item{loadings}{"matrix",  the calculated loadings}
\item{R2cum}{"numeric",  the cumulative R2 values}
\item{sDev}{"numeric",  the individual standard
deviations of the score vectors}
\item{R2}{"numeric",  the individual R2 values}
\item{cvstat}{"numeric",  cross-validation statistics}
\item{nObs}{"numeric", number of observations}
\item{nVar}{"numeric", number of variables}
\item{centered}{"logical", data was centered or not}
\item{center}{"numeric", the original variable centers}
\item{scaled}{"logical", data was scaled or not}
\item{scl}{"numeric", the original variable scales}
\item{varLimit}{"numeric", the exceeded variance limit}
\item{nPcs,nP}{"numeric", the number of calculated PCs}
\item{method}{"character", the method used to perform PCA}
\item{missing}{"numeric", the total amount of missing values in
original data}
\item{completeObs}{"matrix", the estimated complete observations}
\item{network}{"nlpcaNet", the network used by non-linear PCA}
}

\bold{Methods (not necessarily exhaustive)}\cr
\describe{
\item{print}{Print function}
\item{summary}{Extract information about PC relevance}
\item{screeplot}{Plot a barplot of standard deviations for PCs}
\item{slplot}{Make a side by side score and loadings plot}
\item{nPcs}{Get the number of PCs}
\item{nObs}{Get the number of observations}
\item{cvstat}{Cross-validation statistics}
\item{nVar}{Get the number of variables}
\item{loadings}{Get the loadings}
\item{scores}{Get the scores}
\item{dim}{Get the dimensions (number of observations, number of
features)}
\item{centered}{Get a logical indicating if centering was done as
part of the model}
\item{center}{Get the averages of the original variables.}
\item{completeObs}{Get the imputed data set}
\item{method}{Get a string naming the used PCA method}
\item{sDev}{Get the standard deviations of the PCs}
\item{scaled}{Get a logical indicating if scaling was done as
part of the model}
\item{scl}{Get the scales of the original variablesb}
\item{R2cum}{Get the cumulative R2}
}}
\keyword{classes}
\docType{class}
\alias{pcaRes}
\alias{pcaRes-class}
\author{Henning Redestig}