Hi,

I have a few questions regarding the plotTranscript function.

1) what is it actually plotted? If I have several replicates, is this a plot of the total number of reads aligned or the average?

2) I assume that the two y axes are one for the RFs and other for the RNA-seq reads. Which is which?

3) Would it be possible to zoom in on small regions of the ORF?

best,

Antón