Well not really in nature but the most direct way to observe atoms I’m aware of is graphene. It’s exactly one layer of atoms thick, it’s impossible to create graphene that is half as thick, or 1.5 as thick, it’s always whole numbered multiples of a single layer. And that can be visually seen as a single layer is quite transparent but two layers is already much more opaque and there is no way to get a state inbetween
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