Dear Jonathan,

no, I don't think you missed something. The clipping you observed is the result of combining +1000 datasets that implemented slightly different coverage in their sequences. We've excluded the ones with worst coverage, but as you can tell we still missed the top of the brain and the entire cerebellum when combining.

To obtain full brain coverage you'll have to look through the different datasets and only include those with coverage you like.

Hope this helps,
Maarten