Ideogram-class: Class "Ideogram", represent an Ideogram

Description Objects from the Class Slots Methods Author(s) References See Also Examples

Description

An ideogram is a representation of a chromosome containing the banding pattern. Note that currently ideograms are only available for hsapiens.

Objects from the Class

Objects can be created by calls of the form new("Ideogram", ...).

Slots

chromosome:

Object of class "character", representing the chromosome that needs to be drawn. E.g. 3 if chromosome 3 needs to be drawn or Y for Y chromosome.

dp:

Object of class "DisplayPars", can be used to specify the size (default 1) of the ideogram in the final plot and to specify the highlighting color

Methods

No methods defined with class "Ideogram" in the signature.

Author(s)

Steffen Durinck

References

http://www.stat.berkeley.edu/~steffen/

See Also

objects to See Also as gdPlot

Examples

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if(interactive()){
data("exampleData", package="GenomeGraphs")

minbase <- 180292097 
maxbase <- 180492096
ideog <- new("Ideogram", chromosome = "3")
expres <- new("GenericArray", intensity = intensity, probeStart = exonProbePos, 
              dp = DisplayPars(color="darkred", type="point"))
gdPlot(list(ideog, expres), minBase = minbase, maxBase =maxbase)
}

GenomeGraphs documentation built on May 31, 2017, 12:26 p.m.

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