Search results for: graphical methods.
Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 4134

Search results for: graphical methods.

3924 JConqurr - A Multi-Core Programming Toolkit for Java

Authors: G.A.C.P. Ganegoda, D.M.A. Samaranayake, L.S. Bandara, K.A.D.N.K. Wimalawarne

Abstract:

With the popularity of the multi-core and many-core architectures there is a great requirement for software frameworks which can support parallel programming methodologies. In this paper we introduce an Eclipse toolkit, JConqurr which is easy to use and provides robust support for flexible parallel progrmaming. JConqurr is a multi-core and many-core programming toolkit for Java which is capable of providing support for common parallel programming patterns which include task, data, divide and conquer and pipeline parallelism. The toolkit uses an annotation and a directive mechanism to convert the sequential code into parallel code. In addition to that we have proposed a novel mechanism to achieve the parallelism using graphical processing units (GPU). Experiments with common parallelizable algorithms have shown that our toolkit can be easily and efficiently used to convert sequential code to parallel code and significant performance gains can be achieved.

Keywords: Multi-core, parallel programming patterns, GPU, Java, Eclipse plugin, toolkit,

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3923 A Real-Time Image Change Detection System

Authors: Madina Hamiane, Amina Khunji

Abstract:

Detecting changes in multiple images of the same scene has recently seen increased interest due to the many contemporary applications including smart security systems, smart homes, remote sensing, surveillance, medical diagnosis, weather forecasting, speed and distance measurement, post-disaster forensics and much more. These applications differ in the scale, nature, and speed of change. This paper presents an application of image processing techniques to implement a real-time change detection system. Change is identified by comparing the RGB representation of two consecutive frames captured in real-time. The detection threshold can be controlled to account for various luminance levels. The comparison result is passed through a filter before decision making to reduce false positives, especially at lower luminance conditions. The system is implemented with a MATLAB Graphical User interface with several controls to manage its operation and performance.

Keywords: Image change detection, Image processing, image filtering, thresholding, B/W quantization.

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3922 Evaluation of Clustering Based on Preprocessing in Gene Expression Data

Authors: Seo Young Kim, Toshimitsu Hamasaki

Abstract:

Microarrays have become the effective, broadly used tools in biological and medical research to address a wide range of problems, including classification of disease subtypes and tumors. Many statistical methods are available for analyzing and systematizing these complex data into meaningful information, and one of the main goals in analyzing gene expression data is the detection of samples or genes with similar expression patterns. In this paper, we express and compare the performance of several clustering methods based on data preprocessing including strategies of normalization or noise clearness. We also evaluate each of these clustering methods with validation measures for both simulated data and real gene expression data. Consequently, clustering methods which are common used in microarray data analysis are affected by normalization and degree of noise and clearness for datasets.

Keywords: Gene expression, clustering, data preprocessing.

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3921 Vision Based Hand Gesture Recognition

Authors: Pragati Garg, Naveen Aggarwal, Sanjeev Sofat

Abstract:

With the development of ubiquitous computing, current user interaction approaches with keyboard, mouse and pen are not sufficient. Due to the limitation of these devices the useable command set is also limited. Direct use of hands as an input device is an attractive method for providing natural Human Computer Interaction which has evolved from text-based interfaces through 2D graphical-based interfaces, multimedia-supported interfaces, to fully fledged multi-participant Virtual Environment (VE) systems. Imagine the human-computer interaction of the future: A 3Dapplication where you can move and rotate objects simply by moving and rotating your hand - all without touching any input device. In this paper a review of vision based hand gesture recognition is presented. The existing approaches are categorized into 3D model based approaches and appearance based approaches, highlighting their advantages and shortcomings and identifying the open issues.

Keywords: Computer Vision, Hand Gesture, Hand Posture, Human Computer Interface.

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3920 Protein Secondary Structure Prediction

Authors: Manpreet Singh, Parvinder Singh Sandhu, Reet Kamal Kaur

Abstract:

Protein structure determination and prediction has been a focal research subject in the field of bioinformatics due to the importance of protein structure in understanding the biological and chemical activities of organisms. The experimental methods used by biotechnologists to determine the structures of proteins demand sophisticated equipment and time. A host of computational methods are developed to predict the location of secondary structure elements in proteins for complementing or creating insights into experimental results. However, prediction accuracies of these methods rarely exceed 70%.

Keywords: Protein, Secondary Structure, Prediction, DNA, RNA.

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3919 A System for Performance Evaluation of Embedded Software

Authors: Yong-Yoon Cho, Jong-Bae Moon, Young-Chul Kim

Abstract:

Developers need to evaluate software's performance to make software efficient. This paper suggests a performance evaluation system for embedded software. The suggested system consists of code analyzer, testing agents, data analyzer, and report viewer. The code analyzer inserts additional code dependent on target system into source code and compiles the source code. The testing agents execute performance test. The data analyzer translates raw-level results data to class-level APIs for reporting viewer. The report viewer offers users graphical report views by using the APIs. We hope that the suggested tool will be useful for embedded-related software development,because developers can easily and intuitively analyze software's performance and resource utilization.

Keywords: Embedded Software, Performance EvaluationSystem, Testing Agents, Report Generator

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3918 Discovering Complex Regularities by Adaptive Self Organizing Classification

Authors: A. Faro, D. Giordano, F. Maiorana

Abstract:

Data mining uses a variety of techniques each of which is useful for some particular task. It is important to have a deep understanding of each technique and be able to perform sophisticated analysis. In this article we describe a tool built to simulate a variation of the Kohonen network to perform unsupervised clustering and support the entire data mining process up to results visualization. A graphical representation helps the user to find out a strategy to optmize classification by adding, moving or delete a neuron in order to change the number of classes. The tool is also able to automatically suggest a strategy for number of classes optimization.The tool is used to classify macroeconomic data that report the most developed countries? import and export. It is possible to classify the countries based on their economic behaviour and use an ad hoc tool to characterize the commercial behaviour of a country in a selected class from the analysis of positive and negative features that contribute to classes formation.

Keywords: Unsupervised classification, Kohonen networks, macroeconomics, Visual data mining, cluster interpretation.

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3917 Research of a Multistep Method Applied to Numerical Solution of Volterra Integro-Differential Equation

Authors: M.Imanova, G.Mehdiyeva, V.Ibrahimov

Abstract:

Solution of some practical problems is reduced to the solution of the integro-differential equations. But for the numerical solution of such equations basically quadrature methods or its combination with multistep or one-step methods are used. The quadrature methods basically is applied to calculation of the integral participating in right hand side of integro-differential equations. As this integral is of Volterra type, it is obvious that at replacement with its integrated sum the upper limit of the sum depends on a current point in which values of the integral are defined. Thus we receive the integrated sum with variable boundary, to work with is hardly. Therefore multistep method with the constant coefficients, which is free from noted lack and gives the way for finding it-s coefficients is present.

Keywords: Volterra integro-differential equations, multistepmethods, finite-difference methods, initial value problem

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3916 Analysis of Stress Concentration and Deflectionin Isotropic and Orthotropic Rectangular Plates with Central Circular Hole under Transverse Static Loading

Authors: Nitin Kumar Jain

Abstract:

The distributions of stresses and deflection in rectangular isotropic and orthotropic plates with central circular hole under transverse static loading have been studied using finite element method. The aim of author is to analyze the effect of D/A ratio (where D is hole diameter and A is plate width) upon stress concentration factor (SCF) and deflection in isotropic and orthotropic plates under transverse static loading. The D/A ratio is varied from 0.01 to 0.9. The analysis is done for plates of isotropic and two different orthotropic materials. The results are obtained for three different boundary conditions. The variations of SCF and deflection with respect to D/A ratio are presented in graphical form and discussed. The finite element formulation is carried out in the analysis section of the ANSYS package.

Keywords: Finite Element Method, SCF, Deflection, Plate, Boundary conditions

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3915 A Study on the Interlaminar Shear Strength of Carbon Fiber Reinforced Plastics Depending on the Lamination Methods

Authors: Min Sang Lee, Hee Jae Shin, In Pyo Cha, Sun Ho Ko, Hyun Kyung Yoon, Hong Gun Kim, Lee Ku Kwac

Abstract:

The prepreg process among the CFRP (Carbon Fiber Reinforced Plastic) forming methods is the short term of ‘Pre-impregnation’, which is widely used for aerospace composites that require a high quality property such as a fiber-reinforced woven fabric, in which an epoxy hardening resin is impregnated the reality. However, that this process requires continuous researches and developments for its commercialization because the delamination characteristically develops between the layers when a great weight is loaded from outside to supplement such demerit, three lamination methods among the prepreg lamination methods of CFRP were designed to minimize the delamination between the layers due to external impacts. Further, the newly designed methods and the existing lamination methods were analyzed through a mechanical characteristic test, Interlaminar Shear Strength test. The Interlaminar Shear Strength test result confirmed that the newly proposed three lamination methods, i.e. the Roll, Half and Zigzag laminations, presented more excellent strengths compared to the conventional Ply lamination. The interlaminar shear strength in the roll method with relatively dense fiber distribution was approximately 1.75% higher than that in the existing ply lamination method, and in the half method, it was approximately 0.78% higher.

Keywords: Carbon Fiber Reinforced Plastic (CFRP), Pre-Impregnation, Laminating Method, Interlaminar Shear Strength (ILSS).

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3914 Application of Formal Methods for Designing a Separation Kernel for Embedded Systems

Authors: Kei Kawamorita, Ryouta Kasahara, Yuuki Mochizuki, Kenichiro Noguchi

Abstract:

A separation-kernel-based operating system (OS) has been designed for use in secure embedded systems by applying formal methods to the design of the separation-kernel part. The separation kernel is a small OS kernel that provides an abstract distributed environment on a single CPU. The design of the separation kernel was verified using two formal methods, the B method and the Spin model checker. A newly designed semi-formal method, the extended state transition method, was also applied. An OS comprising the separation-kernel part and additional OS services on top of the separation kernel was prototyped on the Intel IA-32 architecture. Developing and testing of a prototype embedded application, a point-of-sale application, on the prototype OS demonstrated that the proposed architecture and the use of formal methods to design its kernel part are effective for achieving a secure embedded system having a high-assurance separation kernel.

Keywords: B method, embedded systems, extended state transition, formal methods, separation kernel, Spin.

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3913 Interactive Methods of Design Education as the Principles of Social Implications of Modern Communities

Authors: Pelin Yildiz

Abstract:

The term interactive education indicates the meaning related with multidisciplinary aspects of distance education following contemporary means around a common basis with different functional requirements. The aim of this paper is to reflect the new techniques in education with the new methods and inventions. These methods are better supplied by interactivity. The integration of interactive facilities in the discipline of education with distance learning is not a new concept but in addition the usage of these methods on design issue is newly being adapted to design education. In this paper the general approach of this method and after the analysis of different samples, the advantages and disadvantages of these approaches are being identified. The method of this paper is to evaluate the related samples and then analyzing the main hypothesis. The main focus is to mention the formation processes of this education. Technological developments in education should be filtered around the necessities of the design education and the structure of the system could then be formed or renewed. The conclusion indicates that interactive methods of education in design issue is a meaning capturing not only technical and computational intelligence aspects but also aesthetical and artistic approaches coming together around the same purpose.

Keywords: Interactive education, distance learning, designeducation, computational intelligence.

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3912 Automation of Web-Portal Construction Processes with SQL Server for the Black Sea Ecosystem Monitoring

Authors: Gia Surguladze, Nino Topuria, Ana Gavardashvili, Tsatsa Namchevadze

Abstract:

The present article discusses design and development of Information System for monitoring ecology within the Black Sea basin of Georgia. Sea parameters, river, estuary, vulnerable district, water sample, etc. were considered as the major parameters of the sea ecosystem. A conceptual schema has been developed for the Black Sea ecosystem based on object-role model. The experimental database for the Black Sea ecosystem has been constructed using Ms SQL Server, while the object-role model NORMA has been developed using graphical instrument Ms Visual Studio within the integrated environment of .NET Framework 4.5. Web portal has been designed based on Ms SharePoint Server. The server database connection with web-portal has been carried out by means of External List of Ms SharePoint Server Designer.

Keywords: Web-application, service-oriented architecture, database, object-role modelling, SharePoint, Black sea, river, estuary, ecology, monitoring system, automation of data processing.

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3911 Assessment of EU Competitiveness Factors by Multivariate Methods

Authors: L. Melecký

Abstract:

Measurement of competitiveness between countries or regions is an important topic of many economic analysis and scientific papers. In European Union (EU), there is no mainstream approach of competitiveness evaluation and measuring. There are many opinions and methods of measurement and evaluation of competitiveness between states or regions at national and European level. The methods differ in structure of using the indicators of competitiveness and ways of their processing. The aim of the paper is to analyze main sources of competitive potential of the EU Member States with the help of Factor analysis (FA) and to classify the EU Member States to homogeneous units (clusters) according to the similarity of selected indicators of competitiveness factors by Cluster analysis (CA) in reference years 2000 and 2011. The theoretical part of the paper is devoted to the fundamental bases of competitiveness and the methodology of FA and CA methods. The empirical part of the paper deals with the evaluation of competitiveness factors in the EU Member States and cluster comparison of evaluated countries by cluster analysis. 

Keywords: Competitiveness, cluster analysis, EU, factor analysis, multivariate methods.

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3910 Manifold Analysis by Topologically Constrained Isometric Embedding

Authors: Guy Rosman, Alexander M. Bronstein, Michael M. Bronstein, Ron Kimmel

Abstract:

We present a new algorithm for nonlinear dimensionality reduction that consistently uses global information, and that enables understanding the intrinsic geometry of non-convex manifolds. Compared to methods that consider only local information, our method appears to be more robust to noise. Unlike most methods that incorporate global information, the proposed approach automatically handles non-convexity of the data manifold. We demonstrate the performance of our algorithm and compare it to state-of-the-art methods on synthetic as well as real data.

Keywords: Dimensionality reduction, manifold learning, multidimensional scaling, geodesic distance, boundary detection.

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3909 Sixth-Order Two-Point Efficient Family of Super-Halley Type Methods

Authors: Ramandeep Behl, S. S. Motsa

Abstract:

The main focus of this manuscript is to provide a highly efficient two-point sixth-order family of super-Halley type methods that do not require any second-order derivative evaluation for obtaining simple roots of nonlinear equations, numerically. Each member of the proposed family requires two evaluations of the given function and two evaluations of the first-order derivative per iteration. By using Mathematica-9 with its high precision compatibility, a variety of concrete numerical experiments and relevant results are extensively treated to confirm t he t heoretical d evelopment. From their basins of attraction, it has been observed that the proposed methods have better stability and robustness as compared to the other sixth-order methods available in the literature.

Keywords: Basins of attraction, nonlinear equations, simple roots, Super-Halley.

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3908 Analysis of Web User Identification Methods

Authors: Renáta Iváncsy, Sándor Juhász

Abstract:

Web usage mining has become a popular research area, as a huge amount of data is available online. These data can be used for several purposes, such as web personalization, web structure enhancement, web navigation prediction etc. However, the raw log files are not directly usable; they have to be preprocessed in order to transform them into a suitable format for different data mining tasks. One of the key issues in the preprocessing phase is to identify web users. Identifying users based on web log files is not a straightforward problem, thus various methods have been developed. There are several difficulties that have to be overcome, such as client side caching, changing and shared IP addresses and so on. This paper presents three different methods for identifying web users. Two of them are the most commonly used methods in web log mining systems, whereas the third on is our novel approach that uses a complex cookie-based method to identify web users. Furthermore we also take steps towards identifying the individuals behind the impersonal web users. To demonstrate the efficiency of the new method we developed an implementation called Web Activity Tracking (WAT) system that aims at a more precise distinction of web users based on log data. We present some statistical analysis created by the WAT on real data about the behavior of the Hungarian web users and a comprehensive analysis and comparison of the three methods

Keywords: Data preparation, Tracking individuals, Web useridentification, Web usage mining

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3907 Using Pattern Search Methods for Minimizing Clustering Problems

Authors: Parvaneh Shabanzadeh, Malik Hj Abu Hassan, Leong Wah June, Maryam Mohagheghtabar

Abstract:

Clustering is one of an interesting data mining topics that can be applied in many fields. Recently, the problem of cluster analysis is formulated as a problem of nonsmooth, nonconvex optimization, and an algorithm for solving the cluster analysis problem based on nonsmooth optimization techniques is developed. This optimization problem has a number of characteristics that make it challenging: it has many local minimum, the optimization variables can be either continuous or categorical, and there are no exact analytical derivatives. In this study we show how to apply a particular class of optimization methods known as pattern search methods to address these challenges. These methods do not explicitly use derivatives, an important feature that has not been addressed in previous studies. Results of numerical experiments are presented which demonstrate the effectiveness of the proposed method.

Keywords: Clustering functions, Non-smooth Optimization, Nonconvex Optimization, Pattern Search Method.

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3906 A New Method for Rapid DNA Extraction from Artemia (Branchiopoda, Crustacea)

Authors: R. Manaffar, R. Maleki, S. Zare, N. Agh, S. Soltanian, B. Sehatnia, P. Sorgeloos, P. Bossier, G. Van Stappen

Abstract:

Artemia is one of the most conspicuous invertebrates associated with aquaculture. It can be considered as a model organism, offering numerous advantages for comprehensive and multidisciplinary studies using morphologic or molecular methods. Since DNA extraction is an important step of any molecular experiment, a new and a rapid method of DNA extraction from adult Artemia was described in this study. Besides, the efficiency of this technique was compared with two widely used alternative techniques, namely Chelex® 100 resin and SDS-chloroform methods. Data analysis revealed that the new method is the easiest and the most cost effective method among the other methods which allows a quick and efficient extraction of DNA from the adult animal.

Keywords: APD, Artemia, DNA extraction, Molecularexperiments

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3905 An Integrated Framework for the Realtime Investigation of State Space Exploration

Authors: Jörg Lassig, Stefanie Thiem

Abstract:

The objective of this paper is the introduction to a unified optimization framework for research and education. The OPTILIB framework implements different general purpose algorithms for combinatorial optimization and minimum search on standard continuous test functions. The preferences of this library are the straightforward integration of new optimization algorithms and problems as well as the visualization of the optimization process of different methods exploring the search space exclusively or for the real time visualization of different methods in parallel. Further the usage of several implemented methods is presented on the basis of two use cases, where the focus is especially on the algorithm visualization. First it is demonstrated how different methods can be compared conveniently using OPTILIB on the example of different iterative improvement schemes for the TRAVELING SALESMAN PROBLEM. A second study emphasizes how the framework can be used to find global minima in the continuous domain.

Keywords: Global Optimization Heuristics, Particle Swarm Optimization, Ensemble Based Threshold Accepting, Ruin and Recreate

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3904 Review and Evaluation of Trending Canonical Correlation Analyses-Based Brain-Computer Interface Methods

Authors: Bayar Shahab

Abstract:

The fast development of technology that has advanced neuroscience and human interaction with computers has enabled solutions to various problems and issues of this new era. The Brain-Computer Interface (BCI) has opened the door to several new research areas and have been able to provide solutions to critical and vital issues such as supporting a paralyzed patient to interact with the outside world, controlling a robot arm, playing games in VR with the brain, driving a wheelchair. This review presents the state-of-the-art methods and improvements of canonical correlation analyses (CCA), an SSVEP-based BCI method. These are the methods used to extract EEG signal features or, to be said differently, the features of interest that we are looking for in the EEG analyses. Each of the methods from oldest to newest has been discussed while comparing their advantages and disadvantages. This would create a great context and help researchers understand the most state-of-the-art methods available in this field, their pros and cons, and their mathematical representations and usage. This work makes a vital contribution to the existing field of study. It differs from other similar recently published works by providing the following: (1) stating most of the main methods used in this field in a hierarchical way, (2) explaining the pros and cons of each method and their performance, (3) presenting the gaps that exist at the end of each method that can improve the understanding and open doors to new researches or improvements. 

Keywords: BCI, CCA, SSVEP, EEG

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3903 Performance Evaluation of Complex Electrical Bio-impedance from V/I Four-electrode Measurements

Authors: Towfeeq Fairooz, Salim Istyaq

Abstract:

The passive electrical properties of a tissue depends on the intrinsic constituents and its structure, therefore by measuring the complex electrical impedance of the tissue it might be possible to obtain indicators of the tissue state or physiological activity [1]. Complete bio-impedance information relative to physiology and pathology of a human body and functional states of the body tissue or organs can be extracted by using a technique containing a fourelectrode measurement setup. This work presents the estimation measurement setup based on the four-electrode technique. First, the complex impedance is estimated by three different estimation techniques: Fourier, Sine Correlation and Digital De-convolution and then estimation errors for the magnitude, phase, reactance and resistance are calculated and analyzed for different levels of disturbances in the observations. The absolute values of relative errors are plotted and the graphical performance of each technique is compared.

Keywords: Electrical Impedance, Fast Fourier Transform, Additive White Gaussian Noise, Total Least Square, Digital De-Convolution, Sine-Correlation.

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3902 A Review: Comparative Analysis of Different Categorical Data Clustering Ensemble Methods

Authors: S. Sarumathi, N. Shanthi, M. Sharmila

Abstract:

Over the past epoch a rampant amount of work has been done in the data clustering research under the unsupervised learning technique in Data mining. Furthermore several algorithms and methods have been proposed focusing on clustering different data types, representation of cluster models, and accuracy rates of the clusters. However no single clustering algorithm proves to be the most efficient in providing best results. Accordingly in order to find the solution to this issue a new technique, called Cluster ensemble method was bloomed. This cluster ensemble is a good alternative approach for facing the cluster analysis problem. The main hope of the cluster ensemble is to merge different clustering solutions in such a way to achieve accuracy and to improve the quality of individual data clustering. Due to the substantial and unremitting development of new methods in the sphere of data mining and also the incessant interest in inventing new algorithms, makes obligatory to scrutinize a critical analysis of the existing techniques and the future novelty. This paper exposes the comparative study of different cluster ensemble methods along with their features, systematic working process and the average accuracy and error rates of each ensemble methods. Consequently this speculative and comprehensive analysis will be very useful for the community of clustering practitioners and also helps in deciding the most suitable one to rectify the problem in hand.

Keywords: Clustering, Cluster Ensemble methods, Co-association matrix, Consensus function, Median partition.

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3901 Triadic Relationship of Icon Design for Semi-Literate Communities

Authors: Peng-Hui Maffee Wan, Klarissa Ting Ting Chang, Rax Suen Chun Lung

Abstract:

Icons, or pictorial and graphical objects, are commonly used in human-computer interaction (HCI) fields as the mediator in order to communicate information to users. Yet there has been little studies focusing on a majority of the world’s population – semi-literate communities – in terms of the fundamental knowhow for designing icons for such population. In this study, two sets of icons belonging in different icon taxonomy – abstract and concrete – are designed for a mobile application for semi-literate agricultural communities. In this paper, we propose a triadic relationship of an icon, namely meaning, task and mental image, which inherits the triadic relationship of a sign. User testing with the application and a post-pilot questionnaire are conducted as the experimental approach in two rural villages in India. Icons belonging to concrete taxonomy perform better than abstract icons on the premise that the design of the icon fulfills the underlying rules of the proposed triadic relationship.

Keywords: Icon, GUI, mobile app, semi-literate.

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3900 Boundary-Element-Based Finite Element Methods for Helmholtz and Maxwell Equations on General Polyhedral Meshes

Authors: Dylan M. Copeland

Abstract:

We present new finite element methods for Helmholtz and Maxwell equations on general three-dimensional polyhedral meshes, based on domain decomposition with boundary elements on the surfaces of the polyhedral volume elements. The methods use the lowest-order polynomial spaces and produce sparse, symmetric linear systems despite the use of boundary elements. Moreover, piecewise constant coefficients are admissible. The resulting approximation on the element surfaces can be extended throughout the domain via representation formulas. Numerical experiments confirm that the convergence behavior on tetrahedral meshes is comparable to that of standard finite element methods, and equally good performance is attained on more general meshes.

Keywords: Boundary elements, finite elements, Helmholtz equation, Maxwell equations.

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3899 The Challenges for Engineers to Change the Construction Method in Brazil

Authors: Yuri B. Cesarino, Vinícius R. Domingues, Darym J. F. Campos

Abstract:

Developing countries have some restrains towards the adoption of new technologies and construction methods. Some nations, such as Brazil, still use conventional construction methodologies, knowing its lesser cost-effectiveness. This research has been conducted to demonstrate how industrialized construction methods should be implemented in Brazil, especially in times of need. Using the common sense among different authors with different perspectives, it is clear that the second method is more suitable for construction development because of its great advantages. However, it is unlikely for this process to be adopted in the country as a result of several social-economic restraints. Nonetheless, Brazilian engineers have a major challenge ahead of them, and it will take more than creativity to solve such an issue.

Keywords: Brazilian engineers, construction methods, industrialized construction, infrastructure.

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3898 PIELG: A Protein Interaction Extraction Systemusing a Link Grammar Parser from Biomedical Abstracts

Authors: Rania A. Abul Seoud, Nahed H. Solouma, Abou-Baker M. Youssef, Yasser M. Kadah

Abstract:

Due to the ever growing amount of publications about protein-protein interactions, information extraction from text is increasingly recognized as one of crucial technologies in bioinformatics. This paper presents a Protein Interaction Extraction System using a Link Grammar Parser from biomedical abstracts (PIELG). PIELG uses linkage given by the Link Grammar Parser to start a case based analysis of contents of various syntactic roles as well as their linguistically significant and meaningful combinations. The system uses phrasal-prepositional verbs patterns to overcome preposition combinations problems. The recall and precision are 74.4% and 62.65%, respectively. Experimental evaluations with two other state-of-the-art extraction systems indicate that PIELG system achieves better performance. For further evaluation, the system is augmented with a graphical package (Cytoscape) for extracting protein interaction information from sequence databases. The result shows that the performance is remarkably promising.

Keywords: Link Grammar Parser, Interaction extraction, protein-protein interaction, Natural language processing.

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3897 Optimal Relaxation Parameters for Obtaining Efficient Iterative Methods for the Solution of Electromagnetic Scattering Problems

Authors: Nadaniela Egidi, Pierluigi Maponi

Abstract:

The approximate solution of a time-harmonic electromagnetic scattering problem for inhomogeneous media is required in several application contexts and its two-dimensional formulation is a Fredholm integral equation of second kind. This integral equation provides a formulation for the direct scattering problem but has to be solved several times in the numerical solution of the corresponding inverse scattering problem. The discretization of this Fredholm equation produces large and dense linear systems that are usually solved by iterative methods. To improve the efficiency of these iterative methods, we use the Symmetric SOR preconditioning and propose an algorithm to evaluate the associated relaxation parameter. We show the efficiency of the proposed algorithm by several numerical experiments, where we use two Krylov subspace methods, i.e. Bi-CGSTAB and GMRES.

Keywords: Fredholm integral equation, iterative method, preconditioning, scattering problem.

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3896 A Critical Approach to Modern Conception in the Context of Objectivity and Quantitative Method

Authors: Sergun Kurtoglu

Abstract:

The struggle between modern and postmodern understanding is also displayed in terms of the superiorities of quantitative and qualitative methods to each other which are evaluated within the scope of these understandings. By way of assuming that the quantitative researches (modern) are able to account for structure while the qualitative researches (postmodern) explain the process, these methods are turned into a means for worldviews specific to a period. In fact, process is not a functioning independent of structure. In addition to this issue, the ability of quantitative methods to provide scientific knowledge is also controversial so long as they exclude the dialectical method. For this reason, the critiques charged against modernism in terms of quantitative methods are, in a sense, legitimate. Nevertheless, the main issue is in which parameters postmodernist critique tries to legitimize its critiques and whether these parameters represent a point of view enabling democratic solutions. In this respect, the scientific knowledge covered in Turkish media as a means through which ordinary people have access to scientific knowledge will be evaluated by means of content analysis within a new objectivity conception.

Keywords: knowledge and objectivity, dialectic method, qualitative and quantitative methods, modernism/postmodernism.

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3895 Numerical Solution of Second-Order Ordinary Differential Equations by Improved Runge-Kutta Nystrom Method

Authors: Faranak Rabiei, Fudziah Ismail, S. Norazak, Saeid Emadi

Abstract:

In this paper we developed the Improved Runge-Kutta Nystrom (IRKN) method for solving second order ordinary differential equations. The methods are two step in nature and require lower number of function evaluations per step compared with the existing Runge-Kutta Nystrom (RKN) methods. Therefore, the methods are computationally more efficient at achieving the higher order of local accuracy. Algebraic order conditions of the method are obtained and the third and fourth order method are derived with two and three stages respectively. The numerical results are given to illustrate the efficiency of the proposed method compared to the existing RKN methods.

Keywords: Improved Runge-Kutta Nystrom method, Two step method, Second-order ordinary differential equations, Order conditions

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