DaFranker comments on The Fundamental Question - Rationality computer game design - Less Wrong
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I've already posted this link in a reply lower down the thread, but here. SMILE seems built explicitly to be used as an API, but I'm not sure I like the way it stores data nor its I/O methods. So far, OpenMarkov with the ProbModelXML are the most attractive implementations, and I think something closer to that (or perhaps use them as API / backend straight-up, depending on language considerations and interfacing issues) would be more straightforward to implement.
As for looking for apps that do this for general use, I've been toying around with this for a bit and it seems quite fun and intuitive to use (well, to someone who knows some bayes anyway).