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As discussed on slack, I imagine it should be possible to write a utility that takes as input a Proj.jl transformation and a complex GeoInterface-compliant geometry (for example a polygon or multipolygon), and returns a transformed GeoInterface-compliant geometry (in this case, a new polygon with transformed points).
I'm not sure what's the best place for such a utility to live, maybe Proj.jl itself could take GeoInterface as a dependency and generalize the transformation from points to arbitrary geometries.