P. Ailliot, C. Thompson, and P. Thomson. Space-time modelling of precipitation by using a hidden Markov model and censored Gaussian distributions. Journal of the Royal Statistical Society, 58(3):405-426, 2009.
 M. Alexandersson, S. Cawley, and L. Pachter. SLAM: Cross-species gene finding and alignment with a generalized pair hidden Markov model. Genome Research, 13:469-502, 2003. [OpenAIRE]
 R. Alur, C. Courcoubetis, and M. Yannakakis. Distinguishing tests for nondeterministic and probabilistic machines. In Proceedings of STOC, pages 363-372. ACM, 1995. [OpenAIRE]
 C. Baier, J. Klein, S. Klu¨ppelholz, and S. Ma¨rcker. Computing conditional probabilities in Markovian models efficiently. In Proceedings of TACAS, volume 8413 of LNCS, pages 515-530, 2014.
 N. Bertrand, S. Haddad, and E. Lefaucheux. Accurate approximate diagnosability of stochastic systems. In Proceedings of LATA, pages 549-561, 2016.
 F.-S. Chen, C.-M. Fu, and C.-L. Huang. Hand gesture recognition using a real-time tracking method and hidden Markov models. Image and Vision Computing, 21(8):745-758, 2003.
 T. Chen and S. Kiefer. On the total variation distance of labelled Markov chains. In Proceedings of CSL-LICS, pages 33:1-33:10, 2014.
 G. Churchill. Stochastic models for heterogeneous DNA sequences. Bulletin of Mathematical Biology, 51(1):79-94, 1989.
 M. Crouse, R. Nowak, and R. Baraniuk. Wavelet-based statistical signal processing using hidden Markov models. IEEE Transactions on Signal Processing, 46(4):886-902, April 1998. [OpenAIRE]
 L. Doyen, T. Henzinger, and J.-F. Raskin. Equivalence of labeled Markov chains. International Journal of Foundations of Computer Science, 19(3):549-563, 2008.
 R. Durbin. Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids. Cambridge University Press, 1998.
 S. Eddy. What is a hidden Markov model? Nature Biotechnology, 22(10):1315-1316, October 2004.
 A. Fraser. Hidden Markov Models and Dynamical Systems. Society for Industrial and Applied Mathematics, 2008.
 J. Gough, K. Karplus, R. Hughey, and C. Chothia. Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. Journal of Molecular Biology, 313(4):903-919, 2001. [OpenAIRE]
 H. Ito, S.-I. Amari, and K. Kobayashi. Identifiability of hidden Markov information sources and their minimum degrees of freedom. IEEE Transactions on Information Theory, 38(2):324-333, March 1992.