Sometimes models make excessive use of assemblies (building elements that contain other building elements) for example when assemblies contain only one object. Or sometimes the application you use does not understand assemblies and cannot for example calculate the quantities of beams and columns from inside a roof assembly. You can solve this issue using the "Assembly: Remove" tool, which does the following two things.
The 'Assemblies: Remove-tool can be used in all cases where a building element contains other building elements, not just with element assemblies. Other typical cases include: