Metagene density plots

[QianzhaoJ]

Hi,
It's a very useful tool for mRNA modification analysis!
I want to generate a metagene density plot like the paper in https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-020-00769-5, This paper seems to use RNAModR for mRNA analysis too, but I don't know how to do it. Could you give me some advice?

Thanks in advance!
Best,
Qianzhao