Counting RNA pseudoknotted structures
Résumé
In 2004, Condon and coauthors gave a hierarchical classification of exact RNA structure prediction algorithms according to the generality of structure classes that they handle. We complete this classification by adding two recent prediction algo- rithms. More importantly, we precisely quantify the hierarchy by giving closed or asymptotic formulas for the theoretical number of structures of given size n in all the classes but one. This allows to assess the tradeoff between the expressiveness and the computational complexity of RNA structure prediction algorithms.
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