Hi
How do I depth cue in ChimeraX? In Chimera I used to be able to precisely control this from the side view window but I cannot find any way of controlling depth cueing in ChimeraX.
Thank you.
Cheers, Paul
Paul Miller (he/him), PhD University Lecturer in Pharmacology Department of Pharmacology University of Cambridge Tennis Court Road Cambridge CB2 1PD +44 1223 761267 https://www.phar.cam.ac.uk/research/miller
Hi Paul, It's basically the same in ChimeraX as in Chimera -- there is a Side View tool for interactive clipping-plane position adjustment, as well as various command options to set the detailed depth-cueing parameters.
https://rbvi.ucsf.edu/chimerax/docs/user/tools/sideview.html
In ChimeraX, these options are within the "lighting" command: depthCue, depthCueColor, depthCueStart, depthCueEnd:
https://rbvi.ucsf.edu/chimerax/docs/user/commands/lighting.html
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Jan 5, 2024, at 5:40 AM, Paul Miller via ChimeraX-users chimerax-users@cgl.ucsf.edu wrote:
Hi
How do I depth cue in ChimeraX? In Chimera I used to be able to precisely control this from the side view window but I cannot find any way of controlling depth cueing in ChimeraX.
Thank you.
Cheers, Paul
Thank you, Elaine, that helped. I had not been typing the "lighting" command before the "depthCue". Cheers, Paul
Paul Miller (he/him), PhD University Lecturer in Pharmacology Department of Pharmacology University of Cambridge Tennis Court Road Cambridge CB2 1PD +44 1223 761267 https://www.phar.cam.ac.uk/research/miller ________________________________ From: Elaine Meng meng@cgl.ucsf.edu Sent: 05 January 2024 17:23 To: Paul Miller pm676@cam.ac.uk Cc: chimerax-users@cgl.ucsf.edu chimerax-users@cgl.ucsf.edu Subject: Re: [chimerax-users] Depth cueing
Hi Paul, It's basically the same in ChimeraX as in Chimera -- there is a Side View tool for interactive clipping-plane position adjustment, as well as various command options to set the detailed depth-cueing parameters.
<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Frbvi.ucsf....https://rbvi.ucsf.edu/chimerax/docs/user/tools/sideview.html>
In ChimeraX, these options are within the "lighting" command: depthCue, depthCueColor, depthCueStart, depthCueEnd:
<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Frbvi.ucsf....https://rbvi.ucsf.edu/chimerax/docs/user/commands/lighting.html>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Jan 5, 2024, at 5:40 AM, Paul Miller via ChimeraX-users chimerax-users@cgl.ucsf.edu wrote:
Hi
How do I depth cue in ChimeraX? In Chimera I used to be able to precisely control this from the side view window but I cannot find any way of controlling depth cueing in ChimeraX.
Thank you.
Cheers, Paul
participants (2)
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Elaine Meng
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Paul Miller