Daylight's Depictions and JavaDepict
Daylight's Depict toolkit currently serves to create depictions
of chemical entities and is used in all our applications.
The Daylight Depict algorithm works by
fixing relative angles in all cycles and for "directional"
to obtain depictions with atoms spread out as far as possible
from each other.
performing a restricted localized minimization around the
remaining free angles
The algorithm is quite stable and robust for layout. However
it could be improved by providing a little flexibility.