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 Markov Models



Hidden Markov Models in Molecular Biology: New Algorithms and Applications

Neural Information Processing Systems

Hidden Markov Models (HMMs) can be applied to several important problemsin molecular biology. We introduce a new convergent learning algorithm for HMMs that, unlike the classical Baum-Welch algorithm is smooth and can be applied online or in batch mode, with or without the usual Viterbi most likely path approximation. Left-right HMMs with insertion and deletion states are then trained to represent several protein families including immunoglobulins and kinases. In all cases, the models derived capture all the important statistical properties of the families and can be used efficiently in a number of important tasks such as multiple alignment, motif detection, andclassification.


Planar Hidden Markov Modeling: From Speech to Optical Character Recognition

Neural Information Processing Systems

We propose in this paper a statistical model (planar hidden Markov model - PHMM) describing statistical properties of images. The model generalizes the single-dimensional HMM, used for speech processing, to the planar case. For this model to be useful an efficient segmentation algorithm, similar to the Viterbi algorithm for HMM, must exist We present conditions in terms of the PHMM parameters that are sufficient to guarantee that the planar segmentation problem can be solved in polynomial time, and describe an algorithm for that. This algorithm aligns optimally the image with the model, and therefore is insensitive to elastic distortions of images. Using this algorithm a joint optima1 segmentation and recognition of the image can be performed, thus overcoming the weakness of traditional OCR systems where segmentation is performed independently before the recognition leading to unrecoverable recognition errors. Tbe PHMM approach was evaluated using a set of isolated band-written digits. An overall digit recognition accuracy of 95% was acbieved. An analysis of the results showed that even in the simple case of recognition of isolated characters, the elimination of elastic distortions enhances the performance Significantly. We expect that the advantage of this approach will be even more significant for tasks such as connected writing recognition/spotting, for whicb there is no known high accuracy method of recognition.


Modeling Consistency in a Speaker Independent Continuous Speech Recognition System

Neural Information Processing Systems

We would like to incorporate speaker-dependent consistencies, such as gender, in an otherwise speaker-independent speech recognition system. In this paper we discuss a Gender Dependent Neural Network (GDNN) which can be tuned for each gender, while sharing most of the speaker independent parameters. We use a classification network to help generate gender-dependent phonetic probabilities for a statistical (HMM) recognition system.The gender classification net predicts the gender with high accuracy, 98.3% on a Resource Management test set. However, the integration ofthe GDNN into our hybrid HMM-neural network recognizer provided an improvement in the recognition score that is not statistically significant on a Resource Management test set.



Time Warping Invariant Neural Networks

Neural Information Processing Systems

We proposed a model of Time Warping Invariant Neural Networks (TWINN) to handle the time warped continuous signals. Although TWINN is a simple modification ofwell known recurrent neural network, analysis has shown that TWINN completely removestime warping and is able to handle difficult classification problem. It is also shown that TWINN has certain advantages over the current available sequential processing schemes: Dynamic Programming(DP)[I], Hidden Markov Model( HMM)[2], Time Delayed Neural Networks(TDNN) [3] and Neural Network Finite Automata(NNFA)[4]. Wealso analyzed the time continuity employed in TWINN and pointed out that this kind of structure can memorize longer input history compared with Neural Network FiniteAutomata (NNFA). This may help to understand the well accepted fact that for learning grammatical reference with NNFA one had to start with very short strings in training set. The numerical example we used is a trajectory classification problem. This problem, making a feature of variable sampling rates, having internal states, continuous dynamics,heavily time-warped data and deformed phase space trajectories, is shown to be difficult to other schemes. With TWINN this problem has been learned in 100 iterations. For benchmark we also trained the exact same problem with TDNN and completely failed as expected.


Directional-Unit Boltzmann Machines

Neural Information Processing Systems

University of Colorado Boulder, CO 80309-0430 Abstract We present a general formulation for a network of stochastic directional units.This formulation is an extension of the Boltzmann machine in which the units are not binary, but take on values in a cyclic range, between 0 and 271' radians. The conditional distribution of a unit's stochastic state is a circular version of the Gaussian probability distribution, known as the von Mises distribution. This combination of a value and a certainty provides additional representational powerin a unit. Many kinds of information can naturally be represented in terms of angular, or directional, variables. A circular range forms a suitable representation for explicitly directional information, such as wind direction, as well as for information where the underlying range is periodic, such as days of the week or months of the year.


Hidden Markov Model Induction by Bayesian Model Merging

Neural Information Processing Systems

This paper describes a technique for learning both the number of states and the topology of Hidden Markov Models from examples. The induction process starts with the most specific model consistent with the training data and generalizes by successively merging states. Both the choice of states to merge and the stopping criterion are guided by the Bayesian posterior probability. We compare our algorithm with the Baum-Welch method of estimating fixed-size models, and find that it can induce minimal HMMs from data in cases where fixed estimation does not converge or requires redundant parameters to converge. 1 INTRODUCTION AND OVERVIEW Hidden Markov Models (HMMs) are a well-studied approach to the modelling of sequence data. HMMs can be viewed as a stochastic generalization of finite-state automata, where both the transitions between states and the generation of output symbols are governed by probability distributions.


Best-First Model Merging for Dynamic Learning and Recognition

Neural Information Processing Systems

"Best-first model merging" is a general technique for dynamically choosing the structure of a neural or related architecture while avoiding overfitting. It is applicable to both leaming and recognition tasks and often generalizes significantly better than fixed structures. We demonstrate the approach applied to the tasks of choosing radial basis functions for function learning, choosing local affine models for curve and constraint surface modelling, and choosing the structure of a balltree or bumptree to maximize efficiency of access.


Time-Warping Network: A Hybrid Framework for Speech Recognition

Neural Information Processing Systems

Such systems attempt to combine the best features of both models: the temporal structure of HMMs and the discriminative power of neural networks. In this work we define a time-warping (1W) neuron that extends the operation of the fonnal neuron of a back-propagation network by warping the input pattern to match it optimally to its weights. We show that a single-layer network of TW neurons is equivalent to a Gaussian density HMMbased recognition system.