Can Structure transformations affect progress calculations?

[Dan Giordano]

I have a fairly simple Structure board, which starts with an individual issue, and then is extended by a parent-child relationship for two levels below that.  We'll call those two levels "Features" and "Stories" (but the top issue is importantly, not an Epic).

I use the Progress field - both as a bar and a percentage based on issue status values I've defined.  I would like to exclude some of the child Features from the progress calculation, but can't figure out how to do that, since my initial automation JQL is essentially "key = PROJECT-1234"

If I use transformations like JQL query filters, the items are grayed-out, but it doesn't ultimately affect the calculation of the progress.  Is there any way to do this?