How to get the mathematical representation of the chemical bonds in protein residue or the whole protein? Is it possible to get the connectivity matrix or a pairwise description?

The example in the photo: PyRosetta Manual, page 16. The full atom representation is stored in /fa_standart/residue_types. Can it be called just as an inline function?

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  • $\begingroup$ I have no idea what you are talking about. Are you trying to get some sort of network out of the output? $\endgroup$ – user2974951 Feb 11 '19 at 12:53
  • $\begingroup$ google.com/… $\endgroup$ – whuber Feb 11 '19 at 13:11
  • $\begingroup$ Yes, exactly. The network of connectivity of the residue or the protein. $\endgroup$ – Pol Bel Feb 15 '19 at 7:52