MS2 expected network degree for Models A, B

• Cprogram_ExpNumNborsAddRemShiftUnifProb.tar: C source code to compute the expected network degree, where the energy of each structure is zero, so the Boltzmann probability exp(-E(s)/RT)/Z is simply the uniform probability 1/N, where N is the total number of secondary structures. This tarball also contains Python code to prototype the algorithm as well as Python code to cross-check results by exhaustive enumeration.

MS2 expected network degree for Model C

• Turner 1999 energy model with parameters from Vienna RNA Package 1.8.5
• Turner 2004 energy model with parameters from Vienna RNA Package 2.0.7