They will. They'll join up to take them down if they're smaller then them.
I wouldn't put Assassin Snails in a take with any snails you'd like to keep.
Why not pull them out for a while and feed them algae wafers while the assassins do their job? You can acclimatize them to room temperature water over time without too much effort I would think. Your only other option would be snail be gone or something similar which will wipe out your nerites as well any how.
From what I've read about them, the assassins will generally go after the easier to eat snails first it seems (MTS, ramshorn, etc) that do not have a operculum (which nerites do have). I have olive nerites in my tank with assassins with no problems thus far.
BTW, don't mean to hijack this thread, but when did you get that many CRS Chris? I'll buy some off of you if you have too many...