\name{plotPCA}
\alias{plotPCA}
\title{plotPCA}
\description{Visualize data, centroids and response confidence intervals for a given subnetwork with PCA. Optionally, color the samples according to annotations labels.}
\usage{plotPCA(x, subnet.id, labels = NULL, confidence = 0.95, ...)}
\arguments{
  \item{x }{ NetResponseModel object. Output from the detect.responses function. }
  \item{subnet.id }{ Subnetwork id. Either character as 'Subnetwork-2' or numeric as 2, which is then converted to character.}
  \item{labels}{Optional: sample class labels to be indicated in colors.}
  \item{confidence}{Confidence interval for the responses based on the covariances of each response. If NULL, no plotting.}
  \item{...}{Further arguments for plot function.}
}
\value{ Used for its side-effects. }
\references{See citation("netresponse") for citation details.}
\author{Leo Lahti \email{leo.lahti@iki.fi}}
\examples{
#plotPCA(x, subnet.id)
}
\keyword{utilities}