Hi,
In general, coloring of a molecule is mapped onto the atoms.
For example carbon = green, hydrogen = gray. The bond between the carbon
and the hydrogen would then be two-tone; half of the bond nearest the
carbon would be green, the other half of the bond nearest the hydrogen
would be gray.
Is it possible to color the bonds in a molecule independent
of the atoms they are incident with? We have some software that computes
which bonds in a molecular structure can rotate (flexible) and which can
not rotate (rigid). I'd like to be able to distinguish these bonds
(flexible versus rigid) with different colors.
The problem is that atoms can be incident with both flexible bonds and
rigid bonds, so we can't simply color an atom appropriately.
Something like "atom_1 atom_2 color" would be nice.
Any thoughts?
Brandon Hespenheide
