My question regards the direction of the positive y axis of molecular
model coordinates when rendered on the screen.

RasMol/Chime render the positive y axis going down (and positive z axis
going away from the user and into the screen)

Jmol renders the positive y axis going up (and positive z axis coming out
of the screen and towards the user)

This is problematic since I am trying to provide a smooth migration path
from Chime to Jmol ... I assume that I will put in a user option.

What do other molecular visualization programs do?

Miguel





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