Refactoring the code

[raph-rc]

The code in this repository is sometimes messy and hard to read --OPSCEA.m is especially problematic since this is what most users will interact with. The proposed goal of this issue is to:

• refactor the code to be more readable
• separate the different parts into functions to promote readability

This goal is only the beginning and the scope of this will be expanded as needed -- feel free to comment if you have an idea of what could help with the user/developer experience