GenomeGraphs (version 1.32.0)

GenomeAxis-class: Class "GenomeAxis", representing a genomic coordinate axis

Description

Represents a genomic coordinate axis

Objects from the Class

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

Slots

add53:

Object of class "logical", indicating if 5 to 3 prime direction needs to be plotted

add35:

Object of class "logical", indicating if 3 to 5 prime direction needs to be plotted

dp:

Object of class "DisplayPars", containing the display parameters such as size of the plot and color

littleTicks:

Object of class "logical", indicating if the genome axis should be dense for improved locating of regions of interest.

Methods

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

References

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

See Also

objects to See Also as gdPlot

Examples

if(interactive()){
mart = useMart("ensembl", dataset="hsapiens_gene_ensembl")
genomeAxis = new("GenomeAxis", add53=TRUE)
plusStrand = new("GeneRegion", chromosome = "17", start = 30450000, end = 30550000, strand = "+", biomart = mart)
gdPlot(list(genomeAxis, plusStrand), minBase = 30450000, maxBase =  30550000)
}