GenomeGraphs (version 1.32.0)

DisplayPars-class: Class "DisplayPars" is used to specify graphical parameters to gdObjects.

Description

The DisplayPars functions analagously to par and gp. Generally the class is instantiated using the DisplayPars function rather than directly.

Objects from the Class

Objects can be created by calls of the form DisplayPars(...) rather than calls to: new("DisplayPars", ...) by calling the DisplayPars function directly in the constructor the gdObjects are guaranteed to have the appropriate defaults.

Slots

pars:

Object of class "environment" Generally this slot is not accessed directly.

Methods

getPar

signature(obj = "DisplayPars"): gets a graphical parameter by name

initialize

signature(.Object = "DisplayPars"): This constructor should not be called directly.

setPar

signature(obj = "DisplayPars"): sets a graphical parameter - see the example below. Often it is easier to set the graphical parameter from within the gdObject.

show

signature(object = "DisplayPars"): prints current graphical parameters

Warning

The DisplayPars class should not be manipulated directly. The preferred method for interacting with the class can be seen in the example below.

Examples

showClass("DisplayPars")

if (interactive()) {
minbase = 10000
maxbase = 15000
mart <- useMart("ensembl", dataset = "scerevisiae_gene_ensembl")
genesplus <- new("GeneRegion", start = minbase, end = maxbase, biomart = mart,
                strand = "+", chromosome = "I", dp = DisplayPars(size = 2))
## plot it. 
gdPlot(list(genesplus, new("Title", title = "genes")), minbase, maxbase)

## to obtain a list of the current graphical parameters:
print(genesplus@dp)

## to set a parameter:
setPar(genesplus, "protein_coding", "pink")
gdPlot(list(genesplus, new("Title", title = "genes")), minbase, maxbase)
}