Alternate Palettes in Paper2D

I’m developing a Fighting game, and to prevent mirror matches I need to be able to have separate palettes, like here, in street fighter 2. Is this possible with Paper2D? if not can someone jump on this? I had an idea where everything would be exported in a different color for each palette, and there’d be another character for that palette, though this would be painstaking, as some of the sprites have to go through AE for more rendering. Thanks for your help, if you have any advice! Hope to hear back.