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Welcome to the DyNoPy tutorial!

Hopefully, you will find the instructions provided here useful on how to use this code.

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Listed below are the sequence of steps on how to generate the J-matrix and extract the community of residues collectively contributing to the dynamics of interest.

1. Coevolution analysis

Generate coevolution matrix which will quantify the pairwise statistical relationship between all pairs of residues.

dyno_coevolution.py -I pdbID -n <number of threads>

General tips

You can invoke the help by using the -h flag. eg:

dyno_coevolution.py -h

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