GeneModel-class: Class "GeneModel", represents a custom gene model

In GenomeGraphs: Plotting genomic information from Ensembl

Description

This class represents a custom gene model defined by exon boundaries. An example of this class could be an Affymetrix gene model used to create the Affy Exon array

Objects from the Class

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

Slots

exonStart:

Object of class "numeric", vector containing the start positions of the exons that are to be drawn

exonEnd:

Object of class "numeric", vector containing the end positions of the exons that are to be drawn

chromosome:

Object of class "numeric" , chromosome name

dp:

Object of class "DisplayPars", color of the exons and size of the exon model in the final plot

Methods

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

Author(s)

Steffen Durinck

References

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

See Also

objects to See Also as gdPlot

Examples

data("unrData", package="GenomeGraphs")
affyModel = new("GeneModel", exonStart = unrPositions[,3], exonEnd =  unrPositions[,4])
gdPlot(list(affyModel), minBase = min(unrPositions[,3]), maxBase=max(unrPositions[,4]))

GenomeGraphs documentation built on Oct. 31, 2019, 4:34 a.m.