Some light Googling suggests that R can interface to Python, and both Chimera and ChimeraX's functionality are available through Python. If you are fluent enough in Python to actually get the interface between the Chimera(X) Python and R to work, you might be better served just writing your code entirely in Python. In any event, ChimeraX is probably a better choice than Chimera since ChimeraX has better programming documentation and is available as a standalone Python package.

On Oct 22, 2024, at 8:24 AM, Eric Pettersen via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

From: Bipasa Show <bipasa.show22ug@apu.edu.in>
Subject: Running_chimera_in_R
Date: October 21, 2024 at 10:48:18 PM PDT
To: chimerax-users@cgl.ucsf.edu

Dear Team Chimera X,
Hope this email finds you well. I am reaching out in order to know if there is a way I can use R to automate specific processes in Chimera and Chimera X like structure-based sequence alignment, finding SASA for multiple residues etc. . It would be nice if you could let me know if automation in these softwares are possible using R.
Thanks and regards,
Bipasa
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