An Algorithm for RNA Pseudoknots

Details An Algorithm for RNA Pseudoknots An Algorithm for RNA Pseudoknots

2003-10-21

arxiv.org/abs/cond-mat/0310505v2

Physics

Condensed Matter

Soft Condensed Matter

21 pages, 14 figures

Scientific paper

We further develop the large $ N $ formalism presented by some of us in earlier works in order to recursively calculate the partition function of a singly pseudoknotted RNA. We demonstrate that this calculation takes time proportional to the sixth power of the length of the RNA. The algorithm itself is presented in a self-contained form for the convenience of readers interested in implementing it.

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