You can change the "Filter query" of the board from this:
project = FOO ORDER BY Rank ASC
...to this:
project = FOO and ty[e != "Sub-task" ORDER BY Rank ASC
Basically, you show every issue type on the board, but "Sub-task".
If you go to "Board" -> "Configure" -> "Swimlanes", you can change the board to base Swimlanes on something besides Stories. Sub-Tasks won't show up in the other options.
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