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.

Assistant Professor

Department of Structural Biology

Jacobs School of Medicine and Biomedical Sciences

University at Buffalo

Room 5128

955 Main Street

Buffalo, New York 14203

Office: 716-829-5490

Email: tdgrant@buffalo.edu

From: <phenixbb-bounces@phenix-online.org> on behalf of Ahmad Khalifa <underoath006@gmail.com>
Date: Sunday, December 20, 2020 at 4:34 PM
To: PHENIX user mailing list <phenixbb@phenix-online.org>
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.