ggbio plotIdeogram(..., zoom.region) broken ?
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kevin.rue ▴ 320
@kevinrue-6757
Last seen 7 weeks ago
University of Oxford

Hi all,

I am justĀ  trying to plot data with ggbio with an ideogram to highlight the region plotted underneath.

I have basically followed the vignette, and I cannot see any change with/without the zoom.region= argument. I have tried the which= argument as well, without better luck. I am pretty sure that in a past release of ggbio, I made a colored rectangle appear on the Ideogram to highlight the region plotted in the other tracks.

Here is code to replicate the issue:

library(biovizBase)
data(hg19IdeogramCyto, package = "biovizBase")
biovizBase::isIdeogram(hg19IdeogramCyto) ## return TRUE
plotIdeogram(hg19IdeogramCyto, "chr1")
plotIdeogram(hg19IdeogramCyto, "chr1", xlabel = TRUE)
plotIdeogram(hg19IdeogramCyto, "chr1",  zoom.region = c(1e7, 1.5e7))

With the last line not showing anything more on the ideogram as far as I can see.

Thanks!

Kevin

> library(BiocInstaller)
Bioconductor version 3.3 (BiocInstaller 1.22.2), ?biocLite for help
> biocValid()
[1] TRUE
ggbio biovizBase • 712 views
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