GenomeAxis-class: Class "GenomeAxis", representing a genomic coordinate axis
In GenomeGraphs: Plotting genomic information from Ensembl

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

Represents a genomic coordinate axis

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

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.

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

Steffen Durinck

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

objects to See Also as gdPlot

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)
}