RE: [PyMOL] Applying a rotation matrix to coordinates

Tom, Neither transform_object or transform_selection are documented yet, and that reflects the fact the that transformation code in PyMOL is still immature and likely to change. However, for your purposes I suggest transform_selection, but be warned that future changes may break y

[PyMOL] Applying a rotation matrix to coordinates

Hi, I want to superimpose two structures using a translation vector and rotation matrix. Is the transform_object() function the best way to do this? Thanks, Tom Walsh