High-throughput sequencing assays such as RNA-Seq, ChIP-Seq or barcode counting provide quantitative readouts in the form of count data. To infer differential signal in such data correctly and with good statistical power, estimation of data variability throughout the dynamic range and a suitable error model are required. We propose a method based on the negative binomial distribution, with variance and mean linked by local regression and present an implementation, DESeq, as an R/Bioconductor package.

/pdf/differential-expression-analysis-for-sequence-count-data-1txizymire.pdf

Differential expression analysis for sequence count data.

The primary goal of pattern recognition is supervised or unsupervised classification. Among the various frameworks in which pattern recognition has been traditionally formulated, the statistical approach has been most intensively studied and used in practice. More recently, neural network techniques and methods imported from statistical learning theory have been receiving increasing attention. The design of a recognition system requires careful attention to the following issues: definition of pattern classes, sensing environment, pattern representation, feature extraction and selection, cluster analysis, classifier design and learning, selection of training and test samples, and performance evaluation. In spite of almost 50 years of research and development in this field, the general problem of recognizing complex patterns with arbitrary orientation, location, and scale remains unsolved. New and emerging applications, such as data mining, web searching, retrieval of multimedia data, face recognition, and cursive handwriting recognition, require robust and efficient pattern recognition techniques. The objective of this review paper is to summarize and compare some of the well-known methods used in various stages of a pattern recognition system and identify research topics and applications which are at the forefront of this exciting and challenging field.

/pdf/statistical-pattern-recognition-a-review-1kz1b0tte4.pdf

Statistical pattern recognition: a review

A wide variety of systems requires reliable personal recognition schemes to either confirm or determine the identity of an individual requesting their services. The purpose of such schemes is to ensure that the rendered services are accessed only by a legitimate user and no one else. Examples of such applications include secure access to buildings, computer systems, laptops, cellular phones, and ATMs. In the absence of robust personal recognition schemes, these systems are vulnerable to the wiles of an impostor. Biometric recognition, or, simply, biometrics, refers to the automatic recognition of individuals based on their physiological and/or behavioral characteristics. By using biometrics, it is possible to confirm or establish an individual's identity based on "who she is", rather than by "what she possesses" (e.g., an ID card) or "what she remembers" (e.g., a password). We give a brief overview of the field of biometrics and summarize some of its advantages, disadvantages, strengths, limitations, and related privacy concerns.

/pdf/an-introduction-to-biometric-recognition-2ww6p38fok.pdf

An introduction to biometric recognition

We consider the automated recognition of human actions in surveillance videos. Most current methods build classifiers based on complex handcrafted features computed from the raw inputs. Convolutional neural networks (CNNs) are a type of deep model that can act directly on the raw inputs. However, such models are currently limited to handling 2D inputs. In this paper, we develop a novel 3D CNN model for action recognition. This model extracts features from both the spatial and the temporal dimensions by performing 3D convolutions, thereby capturing the motion information encoded in multiple adjacent frames. The developed model generates multiple channels of information from the input frames, and the final feature representation combines information from all channels. To further boost the performance, we propose regularizing the outputs with high-level features and combining the predictions of a variety of different models. We apply the developed models to recognize human actions in the real-world environment of airport surveillance videos, and they achieve superior performance in comparison to baseline methods.

/pdf/3d-convolutional-neural-networks-for-human-action-zpxvspu401.pdf

3D Convolutional Neural Networks for Human Action Recognition

We consider the fully automated recognition of actions in uncontrolled environment. Most existing work relies on domain knowledge to construct complex handcrafted features from inputs. In addition, the environments are usually assumed to be controlled. Convolutional neural networks (CNNs) are a type of deep models that can act directly on the raw inputs, thus automating the process of feature construction. However, such models are currently limited to handle 2D inputs. In this paper, we develop a novel 3D CNN model for action recognition. This model extracts features from both spatial and temporal dimensions by performing 3D convolutions, thereby capturing the motion information encoded in multiple adjacent frames. The developed model generates multiple channels of information from the input frames, and the final feature representation is obtained by combining information from all channels. We apply the developed model to recognize human actions in real-world environment, and it achieves superior performance without relying on handcrafted features.

https://icml.cc/Conferences/2010/papers/100.pdf

We develop a common theoretical framework for combining classifiers which use distinct pattern representations and show that many existing schemes can be considered as special cases of compound classification where all the pattern representations are used jointly to make a decision. An experimental comparison of various classifier combination schemes demonstrates that the combination rule developed under the most restrictive assumptions-the sum rule-outperforms other classifier combinations schemes. A sensitivity analysis of the various schemes to estimation errors is carried out to show that this finding can be justified theoretically.

M. Hatef

Papers

On combining classifiers