I just got out of the hospital on Friday with my 13 month old who had/has the rotavirus. We are on a over the counter called culturelle. They come in capsules, that I open up, dump the content in a measuring cup, add a bit of milk to mix it up and put it in a syringe twice a day. Culturelle helps with digestion. From my Dr.'s explanation, rotavirus is an intestinal disease, so you need to replace the now bad flora with good flora...That is what this culturelle does. It is kinda like really good yogurt in a capsule. Because it is good antibodies being put in your system. I was also told it could last up to 3 months.
For us, my little guy's still stinks nasty like (but he was diagnosed 7 days ago). So I expect it to be a while, though in every other way, he seems to be over the worst. At your next appointment, mention it to your Dr.. Not an emergency thing, but he may have something else for you. If you don't mention it and there is something wrong, the Dr won't know to ask and it could go untreated (though right off hand, I can't think of anything else it could be)