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v2.0 series come with new and improved sequence, structure, and dynamics analysis features. See release notes for details.
Bakan A, Meireles LM, Bahar I
ProDy: Protein Dynamics Inferred from Theory and Experiments
Bioinformatics 2011 27(11):1575-1577.
Bakan A, Dutta A, Mao W, Liu Y, Chennubhotla C, Lezon TR, Bahar I
Evol and ProDy for Bridging Protein Sequence Evolution and Structural Dynamics
Bioinformatics 2014 30(18):2681-2683.