Search results for: Structural features.

Authors: Iman A. Saad, Loay E. George

Abstract:

Iris pattern is an important biological feature of human body; it becomes very hot topic in both research and practical applications. In this paper, an algorithm is proposed for iris recognition and a simple, efficient and fast method is introduced to extract a set of discriminatory features using first order gradient operator applied on grayscale images. The gradient based features are robust, up to certain extents, against the variations may occur in contrast or brightness of iris image samples; the variations are mostly occur due lightening differences and camera changes. At first, the iris region is located, after that it is remapped to a rectangular area of size 360x60 pixels. Also, a new method is proposed for detecting eyelash and eyelid points; it depends on making image statistical analysis, to mark the eyelash and eyelid as a noise points. In order to cover the features localization (variation), the rectangular iris image is partitioned into N overlapped sub-images (blocks); then from each block a set of different average directional gradient densities values is calculated to be used as texture features vector. The applied gradient operators are taken along the horizontal, vertical and diagonal directions. The low order norms of gradient components were used to establish the feature vector. Euclidean distance based classifier was used as a matching metric for determining the degree of similarity between the features vector extracted from the tested iris image and template features vectors stored in the database. Experimental tests were performed using 2639 iris images from CASIA V4-Interival database, the attained recognition accuracy has reached up to 99.92%.

Keywords: Iris recognition, contrast stretching, gradient features, texture features, Euclidean metric.

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Authors: Atefeh Heydari, Mohammadali Tavakoli, Zuriati Ismail, Naomie Salim

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Seeking and sharing knowledge on online forums have made them popular in recent years. Although online forums are valuable sources of information, due to variety of sources of messages, retrieving reliable threads with high quality content is an issue. Majority of the existing information retrieval systems ignore the quality of retrieved documents, particularly, in the field of thread retrieval. In this research, we present an approach that employs various quality features in order to investigate the quality of retrieved threads. Different aspects of content quality, including completeness, comprehensiveness, and politeness, are assessed using these features, which lead to finding not only textual, but also conceptual relevant threads for a user query within a forum. To analyse the influence of the features, we used an adopted version of voting model thread search as a retrieval system. We equipped it with each feature solely and also various combinations of features in turn during multiple runs. The results show that incorporating the quality features enhances the effectiveness of the utilised retrieval system significantly.

Keywords: Content quality, Forum search, Thread retrieval, Voting techniques.

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Authors: Matthias Dehmer, Frank Emmert Streib, Alexander Mehler, Jürgen Kilian

Abstract:

Most known methods for measuring the structural similarity of document structures are based on, e.g., tag measures, path metrics and tree measures in terms of their DOM-Trees. Other methods measures the similarity in the framework of the well known vector space model. In contrast to these we present a new approach to measuring the structural similarity of web-based documents represented by so called generalized trees which are more general than DOM-Trees which represent only directed rooted trees.We will design a new similarity measure for graphs representing web-based hypertext structures. Our similarity measure is mainly based on a novel representation of a graph as strings of linear integers, whose components represent structural properties of the graph. The similarity of two graphs is then defined as the optimal alignment of the underlying property strings. In this paper we apply the well known technique of sequence alignments to solve a novel and challenging problem: Measuring the structural similarity of generalized trees. More precisely, we first transform our graphs considered as high dimensional objects in linear structures. Then we derive similarity values from the alignments of the property strings in order to measure the structural similarity of generalized trees. Hence, we transform a graph similarity problem to a string similarity problem. We demonstrate that our similarity measure captures important structural information by applying it to two different test sets consisting of graphs representing web-based documents.

Keywords: Graph similarity, hierarchical and directed graphs, hypertext, generalized trees, web structure mining.

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Authors: Steven Whittle, Ingrida Valiusaityte

Abstract:

Within the domain of Systems Engineering the need to perform property aggregation to understand, analyze and manage complex systems is unequivocal. This can be seen in numerous domains such as capability analysis, Mission Essential Competencies (MEC) and Critical Design Features (CDF). Furthermore, the need to consider uncertainty propagation as well as the sensitivity of related properties within such analysis is equally as important when determining a set of critical properties within such a system. This paper describes this property breakdown in a number of domains within Systems Engineering and, within the area of CDFs, emphasizes the importance of uncertainty analysis. As part of this, a section of the paper describes possible techniques which may be used within uncertainty propagation and in conclusion an example is described utilizing one of the techniques for property and uncertainty aggregation within an aircraft system to aid the determination of Critical Design Features.

Keywords: Complex Systems, Critical Design Features, Property Aggregation, Uncertainty.

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Authors: P. Pongsumpun

Abstract:

Herpes zoster is a disease that manifests as a dermatological condition. The characteristic of this disease is an irritating skin rash with blisters. This is often limited to one side of body. From the data of Herpes zoster cases in Thailand, we found that age structure effects to the transmission of this disease. In this study, we construct the age structural model of Herpes zoster in Thailand. The local stability analysis of this model is given. The numerical solutions are shown to confirm the analytical results.

Keywords: Age structural model, Herpes zoster, local stability, Numerical solution.

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Authors: Satish Kumar

Abstract:

The feature extraction method(s) used to recognize hand-printed characters play an important role in ICR applications. In order to achieve high recognition rate for a recognition system, the choice of a feature that suits for the given script is certainly an important task. Even if a new feature required to be designed for a given script, it is essential to know the recognition ability of the existing features for that script. Devanagari script is being used in various Indian languages besides Hindi the mother tongue of majority of Indians. This research examines a variety of feature extraction approaches, which have been used in various ICR/OCR applications, in context to Devanagari hand-printed script. The study is conducted theoretically and experimentally on more that 10 feature extraction methods. The various feature extraction methods have been evaluated on Devanagari hand-printed database comprising more than 25000 characters belonging to 43 alphabets. The recognition ability of the features have been evaluated using three classifiers i.e. k-NN, MLP and SVM.

Keywords: Features, Hand-printed, Devanagari, Classifier, Database

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Authors: Yi-an Cui, Lu Wang, Jian-ping Xiao

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This paper presents an automatic feature recognition method based on center-surround difference detecting and fuzzy logic that can be applied in ground-penetrating radar (GPR) image processing. Adopted center-surround difference method, the salient local image regions are extracted from the GPR images as features of detected objects. And fuzzy logic strategy is used to match the detected features and features in template database. This way, the problem of objects detecting, which is the key problem in GPR image processing, can be converted into two steps, feature extracting and matching. The contributions of these skills make the system have the ability to deal with changes in scale, antenna and noises. The results of experiments also prove that the system has higher ratio of features sensing in using GPR to image the subsurface structures.

Keywords: feature recognition, GPR image, matching strategy, salient image

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Authors: Haider M. Alsaeq

Abstract:

This research investigates the effects of the opening shape and location on the structural behavior of reinforced concrete deep beam with openings, while keeping the opening size unchanged. The software ANSYS 12.1 is used to handle the nonlinear finite element analysis. The ultimate strength of reinforced concrete deep beam with opening obtained by ANSYS 12.1 shows fair agreement with the experimental results, with a difference of no more than 20%. The present work concludes that the opening location has much more effect on the structural strength than the opening shape. It was concluded that placing the openings near the upper corners of the deep beam may double the strength, and the use of a rectangular narrow opening, with the long sides in the horizontal direction, can save up to 40% of structural strength of the deep beam.

Keywords: Deep Beams, Finite Element, Opening, Reinforced Concrete.

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Authors: F. Rotaru, S. Bejinariu, C. D. Niţâ, R. Luca, I. Pâvâloi, C. Lazâr

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The paper presents a technique suitable in robot vision applications where it is not possible to establish the object position from one view. Usually, one view pose calculation methods are based on the correspondence of image features established at a training step and exactly the same image features extracted at the execution step, for a different object pose. When such a correspondence is not feasible because of the lack of specific features a new method is proposed. In the first step the method computes from two views the 3D pose of feature points. Subsequently, using a registration algorithm, the set of 3D feature points extracted at the execution phase is aligned with the set of 3D feature points extracted at the training phase. The result is a Euclidean transform which have to be used by robot head for reorientation at execution step.

Keywords: features correspondence, registration algorithm, robot vision, triangulation method.

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Authors: O. Hasançebi, S. Kazemzadeh Azad

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In the present study the efficiency of Big Bang-Big Crunch (BB-BC) algorithm is investigated in discrete structural design optimization. It is shown that a standard version of the BB-BC algorithm is sometimes unable to produce reasonable solutions to problems from discrete structural design optimization. Two reformulations of the algorithm, which are referred to as modified BB-BC (MBB-BC) and exponential BB-BC (EBB-BC), are introduced to enhance the capability of the standard algorithm in locating good solutions for steel truss and frame type structures, respectively. The performances of the proposed algorithms are experimented and compared to its standard version as well as some other algorithms over several practical design examples. In these examples, steel structures are sized for minimum weight subject to stress, stability and displacement limitations according to the provisions of AISC-ASD.

Keywords: Structural optimization, discrete optimization, metaheuristics, big bang-big crunch (BB-BC) algorithm, design optimization of steel trusses and frames.

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Authors: Wei-Chih Tang, Shih-Wei Lu, Chih-Mong Tsai, Cheng-Yan Kao, Hsiu-Hui Lee

Abstract:

Previously, harmonic parameters (HPs) have been selected as features extracted from EEG signals for automatic sleep scoring. However, in previous studies, only one HP parameter was used, which were directly extracted from the whole epoch of EEG signal. In this study, two different transformations were applied to extract HPs from EEG signals: Hilbert-Huang transform (HHT) and wavelet transform (WT). EEG signals are decomposed by the two transformations; and features were extracted from different components. Twelve parameters (four sets of HPs) were extracted. Some of the parameters are highly diverse among different stages. Afterward, HPs from two transformations were used to building a rough sleep stages scoring model using the classifier SVM. The performance of this model is about 78% using the features obtained by our proposed extractions. Our results suggest that these features may be useful for automatic sleep stages scoring.

Keywords: EEG, harmonic parameter, Hilbert-Huang transform, sleep stages, wavelet transform.

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Authors: Ming-Hui Lee, Shou-Jen Hsu

Abstract:

This study presents an active vibration control technique to reduce the earthquake responses of a retained structural system. The proposed technique is a synthesis of the adaptive input estimation method (AIEM) and linear quadratic Gaussian (LQG) controller. The AIEM can estimate an unknown system input online. The LQG controller offers optimal control forces to suppress wall-structural system vibration. The numerical results show robust performance in the active vibration control technique.

Keywords: Active vibration control, AIEM, LQG, Optimal control

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Authors: Feifei Lee, Qiu Chen, Koji Kotani, Tadahiro Ohmi

Abstract:

In this paper, we present an improved fast and robust search algorithm for copy detection using histogram-based features for short MPEG video clips from large video database. There are two types of histogram features used to generate more robust features. The first one is based on the adjacent pixel intensity difference quantization (APIDQ) algorithm, which had been reliably applied to human face recognition previously. An APIDQ histogram is utilized as the feature vector of the frame image. Another one is ordinal histogram feature which is robust to color distortion. Furthermore, by Combining with a temporal division method, the spatial and temporal features of the video sequence are integrated to realize fast and robust video search for copy detection. Experimental results show the proposed algorithm can detect the similar video clip more accurately and robust than conventional fast video search algorithm.

Keywords: Fast search, Copy detection, Adjacent pixel intensity difference quantization (APIDQ), DC image, Histogram feature.

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Authors: Elena Lyakso, Olga Frolova, Yuri Matveev

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The aim of the study is to determine the acoustic features of voice and speech of children with autism spectrum disorders (ASD) as a possible additional diagnostic criterion. The participants in the study were 95 children with ASD aged 5-16 years, 150 typically development (TD) children, and 103 adults – listening to children’s speech samples. Three types of experimental methods for speech analysis were performed: spectrographic, perceptual by listeners, and automatic recognition. In the speech of children with ASD, the pitch values, pitch range, values of frequency and intensity of the third formant (emotional) leading to the “atypical” spectrogram of vowels are higher than corresponding parameters in the speech of TD children. High values of vowel articulation index (VAI) are specific for ASD children’s speech signals. These acoustic features can be considered as diagnostic marker of autism. The ability of humans and automatic recognition of the psychoneurological state of children via their speech is determined.

Keywords: Autism spectrum disorders, biomarker of autism, child speech, voice features.

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Authors: Christer Ahlstrom, Katja Höglund, Peter Hult, Jens Häggström, Clarence Kvart, Per Ask

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It is sometimes difficult to differentiate between innocent murmurs and pathological murmurs during auscultation. In these difficult cases, an intelligent stethoscope with decision support abilities would be of great value. In this study, using a dog model, phonocardiographic recordings were obtained from 27 boxer dogs with various degrees of aortic stenosis (AS) severity. As a reference for severity assessment, continuous wave Doppler was used. The data were analyzed with recurrence quantification analysis (RQA) with the aim to find features able to distinguish innocent murmurs from murmurs caused by AS. Four out of eight investigated RQA features showed significant differences between innocent murmurs and pathological murmurs. Using a plain linear discriminant analysis classifier, the best pair of features (recurrence rate and entropy) resulted in a sensitivity of 90% and a specificity of 88%. In conclusion, RQA provide valid features which can be used for differentiation between innocent murmurs and murmurs caused by AS.

Keywords: Bioacoustics, murmur, phonocardiographic signal, recurrence quantification analysis.

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Authors: M. Rodionov, Z. Dedovets

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This article discusses ways to implement a differentiated approach to developing academic motivation for mathematical studies which relies on defining the primary structural characteristics of motivation. The following characteristics are considered: features of realization of cognitive activity, meaningmaking characteristics, level of generalization and consistency of knowledge acquired by personal experience. The assessment of the present level of individual student understanding of each component of academic motivation is the basis for defining the relevant educational strategy for its further development.

Keywords: Learning activity, mathematics, motivation, student.

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Authors: Mina Alibeigi, Sattar Hashemi, Ali Hamzeh

Abstract:

Since dealing with high dimensional data is computationally complex and sometimes even intractable, recently several feature reductions methods have been developed to reduce the dimensionality of the data in order to simplify the calculation analysis in various applications such as text categorization, signal processing, image retrieval, gene expressions and etc. Among feature reduction techniques, feature selection is one the most popular methods due to the preservation of the original features. In this paper, we propose a new unsupervised feature selection method which will remove redundant features from the original feature space by the use of probability density functions of various features. To show the effectiveness of the proposed method, popular feature selection methods have been implemented and compared. Experimental results on the several datasets derived from UCI repository database, illustrate the effectiveness of our proposed methods in comparison with the other compared methods in terms of both classification accuracy and the number of selected features.

Keywords: Feature, Feature Selection, Filter, Probability Density Function

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Authors: Rabab M. Ramadan, Elaraby A. Elgallad

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With extensive application, the performance of unimodal biometrics systems has to face a diversity of problems such as signal and background noise, distortion, and environment differences. Therefore, multimodal biometric systems are proposed to solve the above stated problems. This paper introduces a bimodal biometric recognition system based on the extracted features of the human palm print and iris. Palm print biometric is fairly a new evolving technology that is used to identify people by their palm features. The iris is a strong competitor together with face and fingerprints for presence in multimodal recognition systems. In this research, we introduced an algorithm to the combination of the palm and iris-extracted features using a texture-based descriptor, the Scale Invariant Feature Transform (SIFT). Since the feature sets are non-homogeneous as features of different biometric modalities are used, these features will be concatenated to form a single feature vector. Particle swarm optimization (PSO) is used as a feature selection technique to reduce the dimensionality of the feature. The proposed algorithm will be applied to the Institute of Technology of Delhi (IITD) database and its performance will be compared with various iris recognition algorithms found in the literature.

Keywords: Iris recognition, particle swarm optimization, feature extraction, feature selection, palm print, scale invariant feature transform.

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Authors: Sejong Oh

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Classification is an important topic in machine learning and bioinformatics. Many datasets have been introduced for classification tasks. A dataset contains multiple features, and the quality of features influences the classification accuracy of the dataset. The power of classification for each feature differs. In this study, we suggest the Classification Influence Index (CII) as an indicator of classification power for each feature. CII enables evaluation of the features in a dataset and improved classification accuracy by transformation of the dataset. By conducting experiments using CII and the k-nearest neighbor classifier to analyze real datasets, we confirmed that the proposed index provided meaningful improvement of the classification accuracy.

Keywords: accuracy, classification, dataset, data preprocessing

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Authors: Zhongmin Wang, Wudong Fan, Hengshan Zhang, Yimin Zhou

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In data-driven prognostic methods, the prediction accuracy of the estimation for remaining useful life of bearings mainly depends on the performance of health indicators, which are usually fused some statistical features extracted from vibrating signals. However, the existing health indicators have the following two drawbacks: (1) The differnet ranges of the statistical features have the different contributions to construct the health indicators, the expert knowledge is required to extract the features. (2) When convolutional neural networks are utilized to tackle time-frequency features of signals, the time-series of signals are not considered. To overcome these drawbacks, in this study, the method combining convolutional neural network with gated recurrent unit is proposed to extract the time-frequency image features. The extracted features are utilized to construct health indicator and predict remaining useful life of bearings. First, original signals are converted into time-frequency images by using continuous wavelet transform so as to form the original feature sets. Second, with convolutional and pooling layers of convolutional neural networks, the most sensitive features of time-frequency images are selected from the original feature sets. Finally, these selected features are fed into the gated recurrent unit to construct the health indicator. The results state that the proposed method shows the enhance performance than the related studies which have used the same bearing dataset provided by PRONOSTIA.

Keywords: Continuous wavelet transform, convolution neural network, gated recurrent unit, health indicators, remaining useful life.

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Authors: C. Malça, P. Gonçalves, N. Alves, A. Mateus

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Regardless of the manufacturing process used, subtractive or additive, material, purpose and application, produced components are conventionally solid mass with more or less complex shape depending on the production technology selected. Aspects such as reducing the weight of components, associated with the low volume of material required and the almost non-existent material waste, speed and flexibility of production and, primarily, a high mechanical strength combined with high structural performance, are competitive advantages in any industrial sector, from automotive, molds, aviation, aerospace, construction, pharmaceuticals, medicine and more recently in human tissue engineering. Such features, properties and functionalities are attained in metal components produced using the additive technique of Rapid Prototyping from metal powders commonly known as Selective Laser Melting (SLM), with optimized internal topologies and varying densities. In order to produce components with high strength and high structural and functional performance, regardless of the type of application, three different internal topologies were developed and analyzed using numerical computational tools. The developed topologies were numerically submitted to mechanical compression and four point bending testing. Finite Element Analysis results demonstrate how different internal topologies can contribute to improve mechanical properties, even with a high degree of porosity relatively to fully dense components. Results are very promising not only from the point of view of mechanical resistance, but especially through the achievement of considerable variation in density without loss of structural and functional high performance.

Keywords: Additive Manufacturing, Internal topologies, Porosity, Rapid Prototyping, Selective Laser Melting.

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Authors: Tim D. Sass, Pe, Leed

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The rising price of fossil fuels, government incentives and growing public aware-ness for the need to implement sustainable energy supplies has resulted in a large in-crease in solar panel installations across the country. For many sites the most eco-nomical solar panel installation uses existing, southerly facing rooftops. Adding solar panels to an existing roof typically means increased loads that must be borne by the building-s structural elements. The structural design professional is responsible for ensuring a new solar panel installation is properly supported by an existing structure and configured to maximize energy generation.

Keywords: Solar Panel, Structures, Structural Design.

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Authors: Kechida Ahmed, Drai Redouane, Khelil Mohamed

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In this paper we present a new approach to detecting a flaw in T.O.F.D (Time Of Flight Diffraction) type ultrasonic image based on texture features. Texture is one of the most important features used in recognizing patterns in an image. The paper describes texture features based on 2D Gabor functions, i.e., Gaussian shaped band-pass filters, with dyadic treatment of the radial spatial frequency range and multiple orientations, which represent an appropriate choice for tasks requiring simultaneous measurement in both space and frequency domains. The most relevant features are used as input data on a Fuzzy c-mean clustering classifier. The classes that exist are only two: 'defects' or 'no defects'. The proposed approach is tested on the T.O.F.D image achieved at the laboratory and on the industrial field.

Keywords: 2D Gabor Functions, flaw detection, fuzzy c-mean clustering, non destructive testing, texture analysis, T.O.F.D Image (Time of Flight Diffraction).

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Authors: Manish Kumar, Pradeep Rout Aditya Kumar Jha, Pankaj Gupta

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Wings are structural components of an aeroplane that are used to produce lift while the aircraft is in flight. The initial assault angle of the wing is definite. Due to the pressure difference at the top and bottom surfaces of the wing, lift force is produced when the flow passes over it. This paper explains the fundamental concept of the structural behaviour of a wing threatened by flowing loads during the voyage. The study comprises the use of concepts and analysis with the help of finite element analysis. Wing assembly is the first stage of wing model and design, which are determined by fascinating factual features. The basic gathering wing consists of a thin membrane, two poles, and several ribs. It has two spars, the major spar and the secondary spar. Here, NACA 23015 is selected as the standard model for all types of aerofoil structures since it is more akin to the custom aerofoil utilized in large aircraft, specifically the Airbus A320. Two rods mostly endure the twisting moment and trim strength, which is finished with titanium contamination to ensure enough inflexibility. The covering and wing spars are made of aluminium amalgam to lessen the structural heaviness. Following that, a static underlying examination is performed, and the general contortion, equivalent flexible strain, and comparing Von-Mises pressure are obtained to aid in investigations of the mechanical behaviour of the wing. Moreover, the modular examination is being upheld to decide the normal pace of repetition as well as the modular state of the three orders, which are obtained through the pre-stress modular investigation. The findings of the modular investigation assist engineers in reducing their excitement about regular events and turning away the wing from the whirlwind. Based on the findings of the study, planners can prioritise union and examination of the pressure mindfulness range and tremendous twisting region. All in all, the entertainment outcomes demonstrate that the game plan is feasible and further develop the data grade of the lifting surface.

Keywords: FEM, Airbus, NACA, modulus of elasticity, aircraft wing.

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Authors: Mojtaba Valinejadshoubi, Ashutosh Bagchi, Osama Moselhi

Abstract:

Structures such as buildings, bridges, dams, wind turbines etc. need to be maintained against various factors such as deterioration, excessive loads, environment, temperature, etc. Choosing an appropriate monitoring system is important for determining any critical damage to a structure and address that to avoid any adverse consequence. Structural Health Monitoring (SHM) has emerged as an effective technique to monitor the health of the structures. SHM refers to an ongoing structural performance assessment using different kinds of sensors attached to or embedded in the structures to evaluate their integrity and safety to help engineers decide on rehabilitation measures. Ability of SHM in identifying the location and severity of structural damages by considering any changes in characteristics of the structures such as their frequency, stiffness and mode shapes helps engineers to monitor the structures and take the most effective corrective actions to maintain their safety and extend their service life. The main objective of this study is to review the overall SHM process specifically determining the natural frequency of an instrumented simply-supported concrete beam using modal testing and finite element model updating.

Keywords: Structural Health Monitoring, Natural Frequency, FFT analysis, Finite element model updating.

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Authors: Dongjoo Kim, Chang-Sik Son, Won-Seok Kang

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Adequate sleep affects various parts of one’s overall physical and mental life. As one of the methods in determining the appropriate amount of sleep, this research presents a heart rate based sleep quality index. In order to evaluate sleep quality using the heart rate, sleep data from 280 subjects taken over one month are used. Their sleep data are categorized by a three-part heart rate range. After categorizing, some features are extracted, and the statistical significances are verified for these features. The results show that some features of this sleep quality index model have statistical significance. Thus, this heart rate based sleep quality index may be a useful discriminator of sleep.

Keywords: Sleep, sleep quality, heart rate, statistical analysis.

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Authors: Zilong He, Yuesheng Zhu

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Based on the combined shape feature and texture feature, a fast object detection method with rotation invariant features is proposed in this paper. A quick template matching scheme based online learning designed for online applications is also introduced in this paper. The experimental results have shown that the proposed approach has the features of lower computation complexity and higher detection rate, while keeping almost the same performance compared to the HOG-based method, and can be more suitable for run time applications.

Keywords: gradient feature, online learning, rotationinvariance, template feature

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Authors: Ali Ganoun

Abstract:

This paper proposes evaluation of sound parameterization methods in recognizing some spoken Arabic words, namely digits from zero to nine. Each isolated spoken word is represented by a single template based on a specific recognition feature, and the recognition is based on the Euclidean distance from those templates. The performance analysis of recognition is based on four parameterization features: the Burg Spectrum Analysis, the Walsh Spectrum Analysis, the Thomson Multitaper Spectrum Analysis and the Mel Frequency Cepstral Coefficients (MFCC) features. The main aim of this paper was to compare, analyze, and discuss the outcomes of spoken Arabic digits recognition systems based on the selected recognition features. The results acqired confirm that the use of MFCC features is a very promising method in recognizing Spoken Arabic digits.

Keywords: Speech Recognition, Spectrum Analysis, Burg Spectrum, Walsh Spectrum Analysis, Thomson Multitaper Spectrum, MFCC.

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Authors: Ghada Badr, Arwa Alturki

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The biological function of an RNA molecule depends on its structure. The objective of the alignment is finding the homology between two or more RNA secondary structures. Knowing the common functionalities between two RNA structures allows a better understanding and a discovery of other relationships between them. Besides, identifying non-coding RNAs -that is not translated into a protein- is a popular application in which RNA structural alignment is the first step A few methods for RNA structure-to-structure alignment have been developed. Most of these methods are partial structure-to-structure, sequence-to-structure, or structure-to-sequence alignment. Less attention is given in the literature to the use of efficient RNA structure representation and the structure-to-structure alignment methods are lacking. In this paper, we introduce an O(N2) Component-based Pairwise RNA Structure Alignment (CompPSA) algorithm, where structures are given as a component-based representation and where N is the maximum number of components in the two structures. The proposed algorithm compares the two RNA secondary structures based on their weighted component features rather than on their base-pair details. Extensive experiments are conducted illustrating the efficiency of the CompPSA algorithm when compared to other approaches and on different real and simulated datasets. The CompPSA algorithm shows an accurate similarity measure between components. The algorithm gives the flexibility for the user to align the two RNA structures based on their weighted features (position, full length, and/or stem length). Moreover, the algorithm proves scalability and efficiency in time and memory performance.

Keywords: Alignment, RNA secondary structure, pairwise, component-based, data mining.

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Authors: A. F. Ali, D. M. Shawky

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Discovering new biological knowledge from the highthroughput biological data is a major challenge to bioinformatics today. To address this challenge, we developed a new approach for protein classification. Proteins that are evolutionarily- and thereby functionally- related are said to belong to the same classification. Identifying protein classification is of fundamental importance to document the diversity of the known protein universe. It also provides a means to determine the functional roles of newly discovered protein sequences. Our goal is to predict the functional classification of novel protein sequences based on a set of features extracted from each protein sequence. The proposed technique used datasets extracted from the Structural Classification of Proteins (SCOP) database. A set of spectral domain features based on Fast Fourier Transform (FFT) is used. The proposed classifier uses multilayer back propagation (MLBP) neural network for protein classification. The maximum classification accuracy is about 91% when applying the classifier to the full four levels of the SCOP database. However, it reaches a maximum of 96% when limiting the classification to the family level. The classification results reveal that spectral domain contains information that can be used for classification with high accuracy. In addition, the results emphasize that sequence similarity measures are of great importance especially at the family level.

Keywords: Bioinformatics, Artificial Neural Networks, Protein Sequence Analysis, Feature Extraction.

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