IntClust (version 0.1.0)

ContFeaturesPlot: Plot of continuous features

Description

The function ContFeaturesPlot plots the values of continuous features. It is possible to separate between objects of interest and the other objects.

Usage

ContFeaturesPlot(leadCpds, data, nrclusters = NULL, orderLab = NULL,
  colorLab = NULL, cols = NULL, ylab = "features", addLegend = TRUE,
  margins = c(5.5, 3.5, 0.5, 8.7), plottype = "new", location = NULL)

Arguments

leadCpds

A character vector containing the objects one wants to separate from the others.

data

The data matrix.

nrclusters

Optional. The number of clusters to consider if colorLab is specified. Default is NULL.

orderLab

Optional. If the objects are to set in a specific order of a specific method. Default is NULL.

colorLab

The clustering result that determines the color of the labels of the objects in the plot. If NULL, the labels are black. Default is NULL.

cols

The colors for the labels of the objects. Default is NULL.

ylab

The lable of the y-axis. Default is "features".

addLegend

Logical. Indicates whether a legend should be added to the plot. Default is TRUE.

margins

Optional. Margins to be used for the plot. Default is c(5.5,3.5,0.5,8.7).

plottype

Should be one of "pdf","new" or "sweave". If "pdf", a location should be provided in "location" and the figure is saved there. If "new" a new graphic device is opened and if "sweave", the figure is made compatible to appear in a sweave or knitr document, i.e. no new device is opened and the plot appears in the current device or document. Default is "new".

location

If plottype is "pdf", a location should be provided in "location" and the figure is saved there. Default is NULL.

Value

A plot in which the values of the features of the leadCpds are separeted from the others.

Examples

# NOT RUN {
data(Colors1)
Comps=c("Cpd1", "Cpd2", "Cpd3", "Cpd4", "Cpd5")

Data=matrix(sample(15, size = 50*5, replace = TRUE), nrow = 50, ncol = 5)
colnames(Data)=colnames(Data, do.NULL = FALSE, prefix = "col")
rownames(Data)=rownames(Data, do.NULL = FALSE, prefix = "row")
for(i in 1:50){
	rownames(Data)[i]=paste("Cpd",i,sep="")
}

ContFeaturesPlot(leadCpds=Comps,orderLab=rownames(Data),colorLab=NULL,data=Data,
nrclusters=7,cols=Colors1,ylab="features",addLegend=TRUE,margins=c(5.5,3.5,0.5,8.7),
plottype="new",location=NULL)
# }