Hi @mivalek
It’s fine if you can’t share the data. I’ll try to be as helpful as I can either way. I know API 2.0 documentation is bare bones, but we’re working on a full fledged one as we speak 
With API 2.0, you can choose to use the same filtering functionality that exists in the old version( we’ll revamp filtering in a future iteration of the viewer), or you can also set object materials selectively. One such example is this sandbox which uses that API 2.0 functionality.
I can further help you with maybe another sandbox that does something more close to what you’re trying to do, but I need more details. So far I got that you need to set a group of objects a particular color, and also have them isolated, as in, every other object is ghosted? If the scenarios is more complex than that, please let me know in a reply and we’ll sort it out together
Cheers