Plot transcripts with exaggerated exons and very short introns in R

Question

[shounak.chakraborty1990]

I have to visualize a transcript and reads that align to it. The problem is that the transcript has around 31 exons and quite a few reads mapping to them and if I plot the reads to their actual positions then its too crowded and small to actually see any of the reads.

Is there any tool/library that allows to plot transcripts and reads with just the exons or with extended exons and very short introns?

Thanks

[bernatgel]

Hi, I started working on a package for this kind of plots based in karyoploteR a year ago, but I had to pause its development. It's still in the early stages, but it kind of works already. You can take a look at https://github.com/bernatgel/genoploteR

[shounak.chakraborty1990]

Thanks! Will check it out.