MOTIVATION: Many computational methods for RNA secondary structure prediction, and, in particular, for the prediction of a consensus structure of an alignment of RNA sequences, have been developed. Most methods, however, ignore biophysical factors, such as the kinetics of RNA folding; no current implementation considers both evolutionary information and folding kinetics, thus losing information that, when considered, might lead to better predictions. RESULTS: We present an iterative algorith...Expand abstract
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Oxfold: kinetic folding of RNA using stochastic context-free grammars and evolutionary information.
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