Core software:  Ádám Novák, István Miklós, Rune Lyngsø, Joe Herman

 Structural alignment plugin:  Joe Herman, Christopher Challis

 RNA structure prediction plugin:  Preeti Arunapuram, Ingólfur Eðvarðsson, Michael Golden

 Consensus tree plugin:  Hrafn Eiríksson, Viktor Jonsson, David Wood

 Parallelised MCMCMC:  Joe Herman, Hrafn Eiríksson, Viktor Jonsson, David Wood

 Website:  Ádám Novák, Joe Herman

 Special thanks to:  Jotun Hein, James Anderson, Zsuzsanna Sükösd, William Majoros


StatAlign is distributed under the GNU General Public License Version 3.0. A copy of the license is available in the package or can be viewed here.

Citing StatAlign

If you use StatAlign in your research, please cite the following papers:

  1. Novák Á, Miklós I, Lyngsø R and Hein J (2008) StatAlign: an extendable software package for joint Bayesian estimation of alignments and evolutionary trees. Bioinformatics, 24(20):2403-2404. PubMed Open access

  2. Arunapuram P, Edvardsson I, Golden M, Anderson JWJ, Novák Á, Sükösd Z and Hein J (2013) StatAlign 2.0: Combining statistical alignment with RNA secondary structure prediction. Bioinformatics, 29(5):654-655. PubMed

For the StructAlign plugin, cite

  1. Herman JL, Challis CJ, Novák Á, Hein J and Schmidler, SC (2014) Simultaneous Bayesian estimation of alignment and phylogeny under a joint model of protein sequence and structure. Molecular Biology and Evolution, 31(9):2251-2266. PubMed MBE website

  2. Herman JL (2019) Enhancing statistical multiple sequence alignment and tree inference using structural information. In Computational Methods in Protein Evolution, Methods in Molecular Biology, T.X. Sikosek ed., Springer, New York, NY PubMed Springer website


Please contact Adam Novak at or Joe Herman at with any questions or suggestions.