Script for generating SE simulation data

[CherineLee]

Thank you for your amazing work!

In the manuscript, you performed an SE analysis with simulations of layer-specific expressions that are generated in a reference-free fashion. However, I could not seem to understand how to generate similar simulations, as the tutorial only shows how to generate the two datasets in a reference-based manner. If it is not too much trouble, could you please provide the script for generating the layer-specific expressions for the SE analysis?