The ballots and the metadata go into separate cars, 2 volunteers per car. Tomorrow, at the municipality, more volunteers and municipality staff do a 'detailed count', counting per-person votes (we vote on people, not parties). The result of this is also put in a 'proces verbaal' and digitized. The digital version goes to the national counting organization.
Importantly, all those 'processen verbaal' are published both on the municipality's own website and at the national counting organization.
This means I can mostly trace the votes that I observed being cast at my local polling station, that I participated in counting ('rougly'), and I can verify there are no serious differences to the 'detailed' count and they are accounted for in the national result.
Will there be differences? Sure, there's a lot of manual work. But you can likely observe that those differences are small and noisy enough that they won't affect the final result of the election.