GenomeAxis-class {GenomeGraphs} | R Documentation

## 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.

### Author(s)

Steffen Durinck

### 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)
    }

[Package GenomeGraphs version 1.44.0 Index]