Correct...talk to Mike @B3 first. He'll need you to do up some measurements and will calculate the dimensions needed to re-align the geometry. This could mean both horizontal and vertical movemement of the shaft.

Vertical is easy, but if you need to move it horizontally you'd need an offset shaft, basically the holes for either the studs or bolts is drilled off-center on the shaft. Depending on how much offset you need you could either handle it with a DIY approach, or you might get an already machined shaft.

I base this on my hands-on experience working through this on my W2 Long Valve stroker build.

Keep the following in mind: you may loose some valve lift...I did, about 0.030" on a 0.580" design lift at valve, but the final geometry you arrive at is supposed to make for a much more stable drivetrain.

I have no actual street time on this build yet, still in the heads porting stage, so no real "and this is how it worked out" results to report.