HCR hairpin
NUPACK is a growing software suite for the analysis and design of nucleic acid systems.

The NUPACK web application currently enables:

  • Analysis: thermodynamic analysis of dilute solutions of interacting nucleic acid strands (demos).
  • Design: single-state and multi-state sequence design for interacting nucleic acid strands (demos).
  • Utilities: evaluation, display, and annotation of equilibrium properties of a complex of nucleic acid strands (demos).
NUPACK algorithms are formulated in terms of nucleic acid secondary structure. In most cases, pseudoknots are excluded from the structural ensemble.

You are welcome to use NUPACK for your research. Please cite NUPACK algorithms and the NUPACK web application appropriately.

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