hist-methods: Plot Density Estimate
In xps: Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays

Description Arguments Details Note Author(s) See Also Examples

Plot the density estimates for each sample.

Usage

hist(x, which = "", size = 0, transfo = log2, xlab = "log intensity", ylab = "density", names = "namepart", type = "l", col = 1:6, lty = 1:5, add.legend = FALSE, verbose = TRUE, ...)

`x`	object of class `DataTreeSet` or `ExprTreeSet`.
`which`	type of probes to be used, for details see `validData`.
`size`	length of sequence to be generated as subset.
`transfo`	a valid function to transform the data, usually “log2”, or “0”.
`xlab`	a title for the x axis.
`ylab`	a title for the y axis.
`names`	optional vector of sample names.
`type`	type for the plot.
`col`	colors to use for the different arrays.
`lty`	line types to use for the different arrays.
`add.legend`	logical, if TRUE then a legend will be drawn.
`verbose`	logical, if `TRUE` print status information.
`...`	optional arguments to be passed to `plot`.

Plots the non-parametric density estimates for each sample.

For names=NULL full column names of slot data will be displayed while for names="namepart" column names will be displayed without name extension. If names is a vector of column names, only these columns will displayed as callplot.

For objects of class DataTreeSet it is no longer necessary to attachInten since each data tree will be imported separately.

Christian Stratowa

plotDensity

## load existing ROOT scheme file and ROOT data file
scheme.test3 <- root.scheme(paste(path.package("xps"),"schemes/SchemeTest3.root",sep="/"))
data.test3 <- root.data(scheme.test3, paste(path.package("xps"),"rootdata/DataTest3_cel.root",sep="/"))

if (interactive()) {
hist(data.test3)
}