Ramachandran Principle Options:

• Enable clash trails. After you check Show Clashes, a new checkbox will appear: Trail Clashes. When checked, old clashes remain visible as new clashes form, leaving a trail of past clashes. This option seemed intriguing, but was deemed unnecessary and somewhat confusing after it was implemented.


• Enable clash trails and color clashes orange. The default clash coloring (yellow for shallow clashes, red for deeper clashes) looks choppy when clashes are trailed. A plain orange color looked better. However, once trailing clashes was deemed unnecessary, the default clash coloring seemed better.


• Translucent clashes were also tested. They look great, but slow down phi/psi rotation too much.