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It is probably best to peel them off. If your would rather not you can always clean them in H2O2 before you presoak them. This should kill off any bacteria that could form. Also if you're cooking them after then you shouldn't need to peel them. The cooking should kill off any unwanted bacteria. Some times if you grow them large enough the casings should pop off on their own. I'm going to try this by rinsing them the 4 times a day to see if that helps them grow faster.