karyoploteR: black, gray and red shades in ideogram

Question

[guinevere.q.lee]

Hi all. I just installed karyotypeR. Sorry for my extremely basic question: plotKaryotype() gave me an ideogram without problem. My question is: What does the black, gray and red shades mean? I read several tutorial but still couldn't find any info. The code I used is just simply plotKaryotype(genome="hg38",plot.type=1) Thank you so much!

[WouterDeCoster]

Please use tags appropriately, you should have included karyoploteR. As such experts can easily find your question. And if possible, picking a more descriptive title would be great to cover what your question is about, e.g. "black, gray and red shades in karyoploteR" would be more to the point. Finally, it is often helpful to share the code you used and the image you obtained How to add images to a Biostars post.

Answer 1

[Buffo]

Those blocks indicate the Cytogenetic bands. But at least you are interested on them, you can personalize your plots as you can see in the tutorial.