piRNA 3.6 / biRNA 3.6
piRNA is a parallel C++ package to compute joint and individual partition functions for two RNA sequences. From the partition functions, piRNA computes equilibrium concentrations of single and double joint species, ensemble energy, and melting temperatures.
biRNA is a fast open source tool based on a heuristic algorithm to compute RNA-RNA binding sites.
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Hamidreza Chitsaz, Raheleh Salari, S. Cenk Sahinalp, Rolf Backofen
A Partition Function Algorithm for Interacting Nucleic Acid Strands
Bioinformatics (2009) 25 (12): i365-i373.