I am building a genome map for integrated prophage and the plot below shows single cells on x axis and Y axis is the length parallel to the length of the linear genome map above.
The dots represents the UMI from each singe cells in x axis mapping to each distinct region. The UMI counts for each cells are low around 2-50 UMIs . But i am not sure how to plot this in parallel. I have seen plots like the linear map and the GC content at the bottom or the nucleotide content shown in parallel. But because the UMI count are so low, i do not know how to represent accurately that on a single cell level, we see transcription around different genes. Do i have to make to different plots and combine the screenshot? Or should i normalize the length or umi counts? Thank you