Hi Pranav, The image in my last email was created useing the 5 commands I listed in that email. The main drawback is it gives a 360 view from a point at the middle of the map looking out. So it can be used to see what the inside of a virus capsid looks like, but not the outside. My other suggestion about combining strips of a thousand images during a rotation is what would allow getting an outside 360 degree view. Tom

On Oct 23, 2024, at 10:40 AM, Pranav Shah <pranav.shah@strubi.ox.ac.uk> wrote:

Love it! Thanks Tom, this might just work. WOuld you be happy to share the script you used to generate that stretched out view?

Best, Pranav -- Pranav Shah Post-doctoral Research Associate (PDRA) Division of Structural Biology (STRUBI) University of Oxford. Center for Human Genetics, Roosevelt Drive, Oxford, OX3 7BN, UK

________________________________________ From: Tom Goddard <goddard@sonic.net> Sent: 22 October 2024 20:19 To: Pranav Shah Cc: ChimeraX-bugs@cgl.ucsf.edu Subject: Re: [chimerax-users] Mercator projection of MRC voluem coloured by attribute

Hi Pranav,

I guess you mean you want to save a 360 degree projection image of your colored map? There is nothing quite like that in ChimeraX. If you want a 360 view from the center of the map you can get that with "camera 360" after positioning the view point in the middle of the map. For example

open 1080 from emdb color cylindrical #1 palette redblue move z 350 turn x 90 center #1 camera 360

There is also command volume unroll that can unroll a cylindrical map. But it does not preserve coloring. And there was a flatten icosahedron capability that worked with atomic models in Chimera that is not in ChimeraX.

https://www.cgl.ucsf.edu/chimera/experimental/flatten_icosahedron/flaticos.h...

For what you want you could spin the model around 360 degrees recording images each 0.2 degree, then have a script take the center column of pixels from each image and lay those columns side-by-side in a single image 1800 pixels wide.

Tom

Example of camera 360 giving view inside map EMDB 1080. [emd1080.png][emd1080_360.png]

On Oct 22, 2024, at 10:51 AM, Pranav Shah via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

hi Team, This is potentially a left-of-center question, but is there a way I could generate a mercator projection of an MRC volume that I have colored by zone? I am happy to code this up in the chimerax python environment, but I am not sure how I could access the voxel colour information before projecting the volume.

Best, Pranav -- Pranav Shah Postdoctoral Research Fellow.

Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK _______________________________________________ ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/