getIdeoGR {biovizBase} | R Documentation |
This function tries to parse ideogram information from
seqlengths
of a GRanges
object. This information is
usually used to plot chromosome background for kaytogram or esitmate
proper lengths of chromosomes from data space for showing overview.
getIdeoGR(gr)
gr |
A |
A ideogram GRanges
object, each row indicate one single
chromosome, and start with 1 and end with real chromosome length or
estimated lengths.
Tengfei Yin
library(GenomicRanges) data("hg19IdeogramCyto", package = "biovizBase") hg19IdeogramCyto ## without seqlengths, simply reduce getIdeoGR(hg19IdeogramCyto) ## with seqlengths gr <- GRanges("chr1", IRanges(1,3)) seqlevels(gr) <- c("chr1", "chr2", "chr3") nms <- c(100, 200, 300) names(nms) <- c("chr1", "chr2", "chr3") seqlengths(gr) <- nms gr getIdeoGR(gr)