I implemented the bin-up process (length & flanking SSE types) and now
I'm running the hierarchical clustering on each of the bins. I still
have to write the classification stuff but that shouldn't be too
terrible (serena and I discussed a better way of doing the scoring so I
will put good comments in so we are all on the same page).

The only thing I'm still wondering about is the
testing/cross-validation. I'll be taking a crack at it but if you guys
have ideas feel free to jump in...