Almost every research paper and article I've read talks about annual rates of return. Although it sounds like this calculator is capable of much more, you would only need to use annual compounding.
It's probably a good idea to use "real return" that includes inflation. If you thought the market return was 7% or 9%, you might subtract 3% for inflation and come up with a 4% or 6% real return. That let's you compare your retirement dollars with the cost of things today.