secondary structure analysis

From: Martin, Erik W (
Date: Wed Jan 09 2013 - 14:20:36 CST

Hi, I'm wanting to loop through my trajectories and find out if a particular residue is predicted to be in a particular type of secondary structure in each frame.

I know that stride computes this data, but I'm not sure where its stored, or how to access it in a script. Also, I know that in VMD I can use the "timeline" tool, but the way it writes out data isn't particularly friendly for making additional figures.

Has anyone done something like this before?

Thanks, Erik

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