I haven't tried it yet but I was wondering if it mattered that I know nothing about atoms or not?
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Gave it a try and it seems pretty good.
I think it would make a really great teaching aid for people interested in learning about atoms. The UI is nice and simple which I appreciate.
I had a little look through the PDF it was quite helpful but a little overwhelming at first.
Overall I think it's a pretty neat project and I think you've done a great job man!