--- a
+++ b/man/plotLong.Rd
@@ -0,0 +1,85 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/plotLong.R
+\name{plotLong}
+\alias{plotLong}
+\title{Plot Longitudinal Profiles by Cluster}
+\usage{
+plotLong(
+  object,
+  time = NULL,
+  plot = TRUE,
+  center = TRUE,
+  scale = TRUE,
+  title = "Time-course Expression",
+  X.label = NULL,
+  Y.label = NULL,
+  legend = FALSE,
+  legend.title = NULL,
+  legend.block.name = NULL
+)
+}
+\arguments{
+\item{object}{a mixOmics result of class (s)pca, (s)pls, block.(s)pls.}
+
+\item{time}{(optional) a numeric vector, the same size as \code{ncol(X)}, to change the time scale.}
+
+\item{plot}{a logical, if TRUE then  a plot is produced. Otherwise, the data.frame on which the plot is based on is returned.}
+
+\item{center}{a logical value indicating whether the variables should be shifted to be zero centered.}
+
+\item{scale}{a logical value indicating whether the variables should be scaled to have unit variance before the analysis takes place.}
+
+\item{title}{character indicating the title plot.}
+
+\item{X.label}{x axis titles.}
+
+\item{Y.label}{y axis titles.}
+
+\item{legend}{a logical, to display or not the legend.}
+
+\item{legend.title}{if \code{legend} is provided, title of the legend.}
+
+\item{legend.block.name}{a character vector corresponding to the size of the number of blocks in the mixOmics object.}
+}
+\value{
+a data.frame (gathered form) containing the following columns:
+\item{time}{x axis values}
+\item{molecule}{names of features}
+\item{value}{y axis values}
+\item{cluster}{assigned clusters}
+\item{block}{name of 'blocks'}
+}
+\description{
+This function provides a expression profile representation over time and by cluster.
+}
+\examples{
+demo <- suppressWarnings(get_demo_cluster())
+X <- demo$X
+Y <- demo$Y
+Z <- demo$Z
+
+# (s)pca
+pca.res <- mixOmics::pca(X, ncomp = 3)
+plotLong(pca.res)
+spca.res <- mixOmics::spca(X, ncomp =2, keepX = c(15, 10))
+plotLong(spca.res)
+
+# (s)pls
+pls.res <- mixOmics::pls(X,Y)
+plotLong(pls.res)
+spls.res <- mixOmics::spls(X,Y, keepX = c(15,10), keepY=c(5,6))
+plotLong(spls.res)
+
+# (s)block.spls
+block.pls.res <- mixOmics::block.pls(X=list(X=X,Z=Z), Y=Y)
+plotLong(block.pls.res)
+block.spls.res <- mixOmics::block.spls(X=list(X=X,Z=Z), Y=Y, 
+                             keepX = list(X = c(15,10), Z = c(5,6)), 
+                             keepY = c(3,6))
+plotLong(block.spls.res)
+
+
+}
+\seealso{
+\code{\link[timeOmics]{getCluster}}
+}