Search results for "Multinomial distribution"
showing 10 items of 15 documents
SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations
2016
Various approaches to calling single-nucleotide variants (SNVs) or insertion-or-deletion (indel) mutations have been developed based on next-generation sequencing (NGS). However, most of them are dedicated to a particular type of mutation, e.g. germline SNVs in normal cells, somatic SNVs in cancer/tumor cells, or indels only. In the literature, efficient and integrated callers for both germline and somatic SNVs/indels have not yet been extensively investigated. We present SNVSniffer, an efficient and integrated caller identifying both germline and somatic SNVs/indels from NGS data. In this algorithm, we propose the use of Bayesian probabilistic models to identify SNVs and investigate a mult…
Hop: Histogram of patterns for human action representation
2017
This paper presents a novel method for representing actions in terms of multinomial distributions of frequent sequential patterns of different length. Frequent sequential patterns are series of data descriptors that occur many times in the data. This paper proposes to learn a codebook of frequent sequential patterns by means of an apriori-like algorithm, and to represent an action with a Bag-of-Frequent-Sequential-Patterns approach. Preliminary experiments of the proposed method have been conducted for action classification on skeletal data. The method achieves state-of-the-art accuracy value in cross-subject validation.
Finding condensed descriptions for multi-dimensional data.
1976
Abstract We describe two programs that may be used to find condensed descriptions for data available in a contingency table or in a covariance matrix in the case that these data follow a multinomial or a multivariate normal distribution, respectively. The programs perform a stepwise model search among multiplicative models by computing appropriate likelihood-ratio test statistics.
SNVSniffer: An integrated caller for germline and somatic SNVs based on Bayesian models
2015
The discovery of single nucleotide variants (SNVs) from next-generation sequencing (NGS) data typically works by aligning reads to a given genome and then creating an alignment map to interpret the presence of SNVs. Various approaches have been developed to call whether germline SNVs (or SNPs) in normal cells or somatic SNVs in cancer/tumor cells. Nonetheless, efficient callers for both germline and somatic SNVs have not yet been extensively investigated. In this paper, we present SNVSniffer, an integrated caller for germline and somatic SNVs from NGS data based on Bayesian probabilistic models. In SNVSniffer, our germline SNV calling models allele counts per site as a multinomial condition…
Stochastic discretized learning-based weak estimation: a novel estimation method for non-stationary environments
2016
The task of designing estimators that are able to track time-varying distributions has found promising applications in many real-life problems.Existing approaches resort to sliding windows that track changes by discarding old observations. In this paper, we report a novel estimator referred to as the Stochastic Discretized Weak Estimator (SDWE), that is based on the principles of discretized Learning Automata (LA). In brief, the estimator is able to estimate the parameters of a time varying binomial distribution using finite memory. The estimator tracks changes in the distribution by operating a controlled random walk in a discretized probability space. The steps of the estimator are discre…
A Stochastic Search on the Line-Based Solution to Discretized Estimation
2012
Published version of a chapter in the book: Advanced Research in Applied Artificial Intelligence. Also available from the publisher at: http://dx.doi.org/10.1007/978-3-642-31087-4_77 Recently, Oommen and Rueda [11] presented a strategy by which the parameters of a binomial/multinomial distribution can be estimated when the underlying distribution is nonstationary. The method has been referred to as the Stochastic Learning Weak Estimator (SLWE), and is based on the principles of continuous stochastic Learning Automata (LA). In this paper, we consider a new family of stochastic discretized weak estimators pertinent to tracking time-varying binomial distributions. As opposed to the SLWE, our p…
Occlusion-based estimation of independent multinomial random variables using occurrence and sequential information
2017
Abstract This paper deals with the relatively new field of sequence-based estimation in which the goal is to estimate the parameters of a distribution by utilizing both the information in the observations and in their sequence of appearance. Traditionally, the Maximum Likelihood (ML) and Bayesian estimation paradigms work within the model that the data, from which the parameters are to be estimated, is known, and that it is treated as a set rather than as a sequence. The position that we take is that these methods ignore, and thus discard, valuable sequence -based information, and our intention is to obtain ML estimates by “extracting” the information contained in the observations when perc…
What Does Objective Mean in a Dirichlet-multinomial Process?
2017
Summary The Dirichlet-multinomial process can be seen as the generalisation of the binomial model with beta prior distribution when the number of categories is larger than two. In such a scenario, setting informative prior distributions when the number of categories is great becomes difficult, so the need for an objective approach arises. However, what does objective mean in the Dirichlet-multinomial process? To deal with this question, we study the sensitivity of the posterior distribution to the choice of an objective Dirichlet prior from those presented in the available literature. We illustrate the impact of the selection of the prior distribution in several scenarios and discuss the mo…
An alternative representation of Altham's multiplicative-binomial distribution
1998
Abstract Cox (1972) introduced a log-linear representation for the joint distribution of n binary-dependent responses. Altham (1978) derived the distribution of the sum of such responses, under a multiplicative, rather than log-linear, representation and called it multiplicative-binomial. We propose here an alternative form of the multiplicative-binomial, which is derived from the original Cox's representation and is characterized by intuitively meaningful parameters, and compare its first two moments with those of the standard binomial distribution.
Overall Objective Priors
2015
In multi-parameter models, reference priors typically depend on the parameter or quantity of interest, and it is well known that this is necessary to produce objective posterior distributions with optimal properties. There are, however, many situations where one is simultaneously interested in all the parameters of the model or, more realistically, in functions of them that include aspects such as prediction, and it would then be useful to have a single objective prior that could safely be used to produce reasonable posterior inferences for all the quantities of interest. In this paper, we consider three methods for selecting a single objective prior and study, in a variety of problems incl…