Interesting expansion, Bob!

Just one suggestion:

> # byResidue_Jmol (shapely) and byResidue_Rasmol (amino)

In fact, RasMol uses both amino and shapely, with the same colors as 
Jmol, so the proposed names are not meaningful (although Jmol shapely 
adds inosine and uracil).
So, I would suggest to name them 
byResidue_shapely and byResidue_amino

For elements, Jmol and RasMol differences are well served by your 
proposal.



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