An Algorithm for RNA Pseudoknots

  title={An Algorithm for RNA Pseudoknots},
  author={Marlisa L Pillsbury and Jason Allen Taylor and Henri Orland and A. Zee},
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.