I am using the VMD software, and use "Extension - Analysis - Timeline - Calculate - Calc. Sec. Structure" to visualise the secondary structure of my trajectories.

  1. I need to screenshot to get the graph. Can I output it using a build-in command instead?

  2. I have hundreds of trajectories to analyse. Each time, I need "File - Write data file" to output the raw STRIDE code. Can I use some script to enable batch output?

  • $\begingroup$ Are these instructions related to your problem? $\endgroup$
    – llrs
    Jan 26, 2018 at 12:18
  • $\begingroup$ Thanks, but I do not think so. I want to "batch" output the files, as I have many trajectories to load. $\endgroup$
    – lanselibai
    Jan 26, 2018 at 15:39
  • $\begingroup$ Try here: mattermodeling.stackexchange.com. There's way more VMD questions there. $\endgroup$ Dec 7, 2020 at 2:55
  • $\begingroup$ Can I move my questions there? $\endgroup$
    – lanselibai
    Dec 7, 2020 at 15:34


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