Hi Ahmad, phenix.match_maps is the tool to superpose maps and models. Pavel On Sun, Dec 20, 2020, 1:38 PM Ahmad Khalifa wrote:

I have two density maps that I'm trying to align, or more precisely, calculate the transformation matrix (rotation and translation) of their alignment (moving one map and aligning it with the other map). Is there a way to accomplish that using phenix or any other tool?

Thanks a lot and happy holidays. _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb Unsubscribe: [email protected]

The EMAN2 script e2spt_align.py can do that, and it will save the transformation matrix in a JSON file. -Tom -- Thomas D. Grant, Ph.D.http://medicine.buffalo.edu/content/medicine/faculty/profile.html?ubit=tdgra... Assistant Professor Department of Structural Biology Jacobs School of Medicine and Biomedical Scienceshttp://medicine.buffalo.edu/ University at Buffalo Room 5128 955 Main Street Buffalo, New York 14203 Office: 716-829-5490 Email: [email protected]mailto:[email protected] From: on behalf of Ahmad Khalifa Date: Sunday, December 20, 2020 at 4:34 PM To: PHENIX user mailing list Subject: [phenixbb] Calculating the transformation matrix of density map alignment I have two density maps that I'm trying to align, or more precisely, calculate the transformation matrix (rotation and translation) of their alignment (moving one map and aligning it with the other map). Is there a way to accomplish that using phenix or any other tool? Thanks a lot and happy holidays.