scholarly journals Unsupervised Clusterless Decoding using a Switching Poisson Hidden Markov Model

2019 ◽  
Author(s):  
Etienne Ackermann ◽  
Caleb T. Kemere ◽  
John P. Cunningham

AbstractSpike sorting is a standard preprocessing step to obtain ensembles of single unit data from multiunit, multichannel recordings in neuroscience. However, more recently, some researchers have started doing analyses directly on the unsorted data. Here we present a new computational model that is an extension of the standard (unsupervised) switching Poisson hidden Markov model (where observations are time-binned spike counts from each of N neurons), to a clusterless approximation in which we observe only a d-dimensional mark for each spike. Such an unsupervised yet clusterless approach has the potential to incorporate more information than is typically available from spike-sorted approaches, and to uncover temporal structure in neural data without access to behavioral correlates. We show that our approach can recover model parameters from simulated data, and that it can uncover task-relevant structure from real neural data.


Author(s):  
Jun Mizuno ◽  
Tatsuya Watanabe ◽  
Kazuya Ueki ◽  
Kazuyuki Amano ◽  
Eiji Takimoto ◽  
...  


2019 ◽  
Vol 16 (5) ◽  
pp. 172988141987679
Author(s):  
Kohjiro Hashimoto ◽  
Tetsuyasu Yamada ◽  
Takeshi Tsuchiya ◽  
Kae Doki ◽  
Yuki Funabora ◽  
...  

With increase in the number of elderly people in the Japanese society, traffic accidents caused by elderly driver is considered problematic. The primary factor of the traffic accidents is a reduction in their driving cognitive performance. Therefore, a system that supports the cognitive performance of drivers can greatly contribute in preventing accidents. Recently, the development of devices for visually providing information, such as smart glasses or head up display, is in progress. These devices can provide more effective supporting information for cognitive performance. In this article, we focus on the selection problem of information to be presented for drivers to realize the cognitive support system. It has been reported that the presentation of excessive information to a driver reduces the judgment ability of the driver and makes the information less trustworthy. Thus, indiscriminate presentation of information in the vision of the driver is not an effective cognitive support. Therefore, a mechanism for determining the information to be presented to the driver based on the current driving situation is required. In this study, the object that contributes to execution of avoidance driving operation is regarded as the object that drivers must recognize and present for drivers. This object is called as contributing object. In this article, we propose a method that selects contributing objects among the appeared objects on the current driving scene. The proposed method expresses the relation between the time series change of an appeared object and avoidance operation of the driver by a mathematical model. This model can predict execution timing of avoidance driving operation and estimate contributing object based on the prediction result of driving operation. This model named as contributing model consisted of multi-hidden Markov models. Hidden Markov model is time series probabilistic model with high readability. This is because that model parameters express the probabilistic distribution and its statistics. Therefore, the characteristics of contributing model are that it enables the designer to understand the basis for the output decision. In this article, we evaluated detection accuracy of contributing object based on the proposed method, and readability of contributing model through several experiments. According to the results of these experiments, high detection accuracy of contributing object was confirmed. Moreover, it was confirmed that the basis of detected contributing object judgment can be understood from contributing model.



1993 ◽  
Vol 1 (1) ◽  
pp. 77-83 ◽  
Author(s):  
L.R. Bahl ◽  
P.F. Brown ◽  
P.V. de Souza ◽  
R.L. Mercer


2015 ◽  
Vol 71 (4) ◽  
pp. 423-443 ◽  
Author(s):  
P. M. Riechers ◽  
D. P. Varn ◽  
J. P. Crutchfield

Given a description of the stacking statistics of layered close-packed structures in the form of a hidden Markov model, analytical expressions are developed for the pairwise correlation functions between the layers. These may be calculated analytically as explicit functions of model parameters or the expressions may be used as a fast, accurate and efficient way to obtain numerical values. Several examples are presented, finding agreement with previous work as well as deriving new relations.



2000 ◽  
Vol 53 (2) ◽  
pp. 317-327 ◽  
Author(s):  
Ingmar Visser ◽  
Maartje E. J. Raijmakers ◽  
Peter C. M. Molenaar


Author(s):  
Zhiwei Jiang ◽  
Xiaoqing Ding ◽  
Liangrui Peng ◽  
Changsong Liu

Hidden Markov Model (HMM) is an effective method to describe sequential signals in many applications. As to model estimation issue, common training algorithm only focuses on the optimization of model parameters. However, model structure influences system performance as well. Although some structure optimization methods are proposed, they are usually implemented as an independent module before parameter optimization. In this paper, the clustering feature of states in HMM is discussed through comparing the mechanism of Quadratic Discriminant Function (QDF) classifier and HMM. Then, through the clustering effect of Viterbi training and Baum–Welch training, a novel clustering-based model pre-training approach is proposed. It can optimize model parameters and model structure by turns, until the representative states of all models are explored. Finally, the proposed approach is evaluated on two typical OCR applications, printed and handwritten Arabic text line recognition. And it is compared with some other optimization methods. The improvement of character recognition performance proves the proposed approach can make more precise state allocation. And the representative states are benefit to HMM decoding.



2015 ◽  
Vol 2015 ◽  
pp. 1-12 ◽  
Author(s):  
Yu-Chen Zhang ◽  
Shao-Wu Zhang ◽  
Lian Liu ◽  
Hui Liu ◽  
Lin Zhang ◽  
...  

With the development of new sequencing technology, the entire N6-methyl-adenosine (m6A) RNA methylome can now be unbiased profiled with methylated RNA immune-precipitation sequencing technique (MeRIP-Seq), making it possible to detect differential methylation states of RNA between two conditions, for example, between normal and cancerous tissue. However, as an affinity-based method, MeRIP-Seq has yet provided base-pair resolution; that is, a single methylation site determined from MeRIP-Seq data can in practice contain multiple RNA methylation residuals, some of which can be regulated by different enzymes and thus differentially methylated between two conditions. Since existing peak-based methods could not effectively differentiate multiple methylation residuals located within a single methylation site, we propose a hidden Markov model (HMM) based approach to address this issue. Specifically, the detected RNA methylation site is further divided into multiple adjacent small bins and then scanned with higher resolution using a hidden Markov model to model the dependency between spatially adjacent bins for improved accuracy. We tested the proposed algorithm on both simulated data and real data. Result suggests that the proposed algorithm clearly outperforms existing peak-based approach on simulated systems and detects differential methylation regions with higher statistical significance on real dataset.



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