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We present a new method for inferring hidden Markov models from noisy time sequences without the necessity of assuming a model architecture, thus allowing for the detection of degenerate states. This is based on the statistical prediction…

Quantitative Methods · Quantitative Biology 2012-01-24 David Kelly , Mark Dillingham , Andrew Hudson , Karoline Wiesner

Hidden Markov models (HMMs) are general purpose models for time-series data widely used across the sciences because of their flexibility and elegance. However fitting HMMs can often be computationally demanding and time consuming,…

Computation · Statistics 2021-09-15 Marnus Stoltz , Gene Stoltz , Kazushige Obara , Ting Wang , David Bryant

This paper presents new theory and methodology for the Bayesian estimation of overfitted hidden Markov models, with finite state space. The goal is then to achieve posterior emptying of extra states. A prior configuration is constructed…

Methodology · Statistics 2016-02-09 Zoé van Havre , Judith Rousseau , Nicole White , Kerrie Mengersen

People are living longer than ever before, and with this arises new complications and challenges for humanity. Among the most pressing of these challenges is of understanding the role of aging in the development of dementia. This paper is…

Methodology · Statistics 2018-08-07 Jonathan P Williams , Curtis B Storlie , Terry M Therneau , Clifford R Jack , Jan Hannig

Recent years have seen substantial advances in the development of biofunctional materials using synthetic polymers. The growing problem of elusive sequence-functionality relations for most biomaterials has driven researchers to seek more…

Quantitative Methods · Quantitative Biology 2022-07-06 Yun Zhou , Boying Gong , Tao Jiang , Ting Xu , Haiyan Huang

In this note we introduce an estimate for the marginal likelihood associated to hidden Markov models (HMMs) using sequential Monte Carlo (SMC) approximations of the generalized two-filter smoothing decomposition (Briers, 2010). This…

Methodology · Statistics 2012-09-04 Adam Persing , Ajay Jasra

Factorial Hidden Markov Models (FHMMs) are powerful models for sequential data but they do not scale well with long sequences. We propose a scalable inference and learning algorithm for FHMMs that draws on ideas from the stochastic…

Machine Learning · Statistics 2016-10-31 Yin Cheng Ng , Pawel Chilinski , Ricardo Silva

Data collected by wearable devices in sports provide valuable information about an athlete's behavior such as their activity, performance, and ability. These time series data can be studied with approaches such as hidden Markov and…

Applications · Statistics 2020-10-22 Shirley Rojas-Salazar , Erin M. Schliep , Christopher K. Wikle , Matthew Hawkey

We consider a method for approximate inference in hidden Markov models (HMMs). The method circumvents the need to evaluate conditional densities of observations given the hidden states. It may be considered an instance of Approximate…

Computation · Statistics 2012-06-25 James S. Martin , Ajay Jasra , Sumeetpal S. Singh , Nick Whiteley , Emma McCoy

We consider probabilistic systems with hidden state and unobservable transitions, an extension of Hidden Markov Models (HMMs) that in particular admits unobservable {\epsilon}-transitions (also called null transitions), allowing state…

Machine Learning · Computer Science 2022-05-30 Rebecca Bernemann , Barbara König , Matthias Schaffeld , Torben Weis

Language models based on deep neural networks and traditional stochastic modelling have become both highly functional and effective in recent times. In this work, a general survey into the two types of language modelling is conducted. We…

Machine Learning · Computer Science 2021-03-02 Larkin Liu , Yu-Chung Lin , Joshua Reid

Determining entropy rates of stochastic processes is a fundamental and difficult problem, with closed-form solutions known only for specific cases. This paper pushes the state-of-the-art by solving the problem for Hidden Markov Models…

Information Theory · Computer Science 2017-09-29 Joachim Breitner , Maciej Skorski

Pairwise Markov Models (PMMs) extend the wellknown Hidden Markov Models (HMMs). Being significantly more general, PMMs enable several types of processing, like Bayesian filtering or smoothing, similar to those used in HMMs. In this paper,…

Dynamical Systems · Mathematics 2024-02-13 Marc Escudier , Ikram Abdelkefi , Clément Fernandes , Wojciech Pieczynski

Hidden Markov models are widely used for modeling sequential data but typically have limited applicability in observational causal inference due to their strong conditional independence assumptions. I introduce feedback-augmented…

Methodology · Statistics 2025-03-21 Jouni Helske

We introduce an extension of finite mixture models by incorporating skew-normal distributions within a Hidden Markov Model framework. By assuming a constant transition probability matrix and allowing emission distributions to vary according…

Methodology · Statistics 2025-09-25 Andrea Nigri , Marco Forti , Han Lin Shang

Variational inference algorithms have proven successful for Bayesian analysis in large data settings, with recent advances using stochastic variational inference (SVI). However, such methods have largely been studied in independent or…

Machine Learning · Statistics 2014-11-07 Nicholas J. Foti , Jason Xu , Dillon Laird , Emily B. Fox

Recent studies have proposed that one can summarize brain activity into dynamics among a relatively small number of hidden states and that such an approach is a promising tool for revealing brain function. Hidden Markov models (HMMs) are a…

Neurons and Cognition · Quantitative Biology 2021-09-02 Takahiro Ezaki , Yu Himeno , Takamitsu Watanabe , Naoki Masuda

Hidden Markov model (HMM) has been successfully used for sequential data modeling problems. In this work, we propose to power the modeling capacity of HMM by bringing in neural network based generative models. The proposed model is termed…

Machine Learning · Computer Science 2020-05-26 Dong Liu , Antoine Honoré , Saikat Chatterjee , Lars K. Rasmussen

This work aims at providing a new model for time series classification based on learning from just one example. We assume that time series can be well characterized as a parametric random process, a sort of Hidden semi-Markov Model…

Machine Learning · Statistics 2022-11-18 Adrián Pérez Herrero , Paulo Félix Lamas , Jesús María Rodríguez Presedo

Various studies that address the compressed sensing problem with Multiple Measurement Vectors (MMVs) have been recently carried. These studies assume the vectors of the different channels to be jointly sparse. In this paper, we relax this…

Machine Learning · Computer Science 2016-11-14 Hamid Palangi , Rabab Ward , Li Deng
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