IdiogramParams-class {VanillaICE} | R Documentation |
Paramater class for plotting idiograms
## S4 method for signature 'IdiogramParams' show(object)
object |
an IdiogramParam object |
seqnames
length-one character vector providing chromosome name
seqlengths
length-one numeric vector indicating size of chromosome
unit
character string indicating unit for genomic position (default is 'kb')
genome
character string indicating genome build
box
a list of parameters for plotting the box around the part of the idiogram that is plotted.
if(require(BSgenome.Hsapiens.UCSC.hg18) && require(grid)){ si <- seqinfo(BSgenome.Hsapiens.UCSC.hg18) iparam <- IdiogramParams(seqnames="chr1", genome="hg18", seqlengths=seqlengths(si)["chr1"], box=list(xlim=c(20e6L, 25e6L), color="blue", lwd=2)) iparam idiogram <- plot(iparam) vp <- viewport(x=0.05, y=0.8, width=unit(0.9, "npc"), height=unit(0.2, "npc"), name="vp1", just=c("left", "bottom")) grid.newpage() pushViewport(vp) print(idiogram, vp=vp, newpage=FALSE) }