[3dem] determine spherically averaged radial density

[Ludtke, Steven J.]

To add, if your goal is to compute the radial density distribution as a curve rather than the averaged volume,
e2proc3d.py  --calcradial 0 map.mrc radial.txt
(can also calculate min,max)

e2proc3d.py  --help

---
Steven Ludtke, Ph.D. <sludtke at bcm.edu>                      Baylor College of Medicine
Charles C. Bell Jr., Professor of Structural Biology        Dept. of Biochemistry
Deputy Director, Advanced Technology Cores                  and Molecular Pharmacology
Academic Director, CryoEM Core
Co-Director CIBR Center


On Apr 9, 2024, at 5:34 AM, Tom Calcraft <tom.calcraft at crick.ac.uk> wrote:

Hi Dieter,

The math.rotationalaverage function in EMAN2’s e2proc3d.py should do what you are looking for:

e2proc3d.py --process=math.rotationalaverage input.mrc output.mrc

Best,
Tom

On 9 Apr 2024, at 10:33, Dieter Blaas <dieter.blaas at meduniwien.ac.at<mailto:dieter.blaas at meduniwien.ac.at>> wrote:


External Sender: Use caution.


Dear all,

 we need to determine the spherically averaged radial density of a
symmetric virus. Long ago, we used for this xmipp_operate but my old
scipion3 and xmipp installs do not work any more. Is there any other
piece of software that can easily do this without too much ado?

Thanks for hints, Dieter

------------------------------------------------------------------------
Dieter Blaas,
Max Perutz Laboratories
Medical University of Vienna,
Inst. Med. Biochem., Vienna Biocenter (VBC),
Dr. Bohr Gasse 9/3,
A-1030 Vienna, Austria,
Tel: 0043 1 4277 61630,
Mobile: 0043 699 1942 1659
e-mail: dieter.blaas at meduniwien.ac.at
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