Search results for: Component image

Authors: Ayman A. Aly, Abdallah A. Alshnnaway

Abstract:

The general idea behind the filter is to average a pixel using other pixel values from its neighborhood, but simultaneously to take care of important image structures such as edges. The main concern of the proposed filter is to distinguish between any variations of the captured digital image due to noise and due to image structure. The edges give the image the appearance depth and sharpness. A loss of edges makes the image appear blurred or unfocused. However, noise smoothing and edge enhancement are traditionally conflicting tasks. Since most noise filtering behaves like a low pass filter, the blurring of edges and loss of detail seems a natural consequence. Techniques to remedy this inherent conflict often encompass generation of new noise due to enhancement. In this work a new fuzzy filter is presented for the noise reduction of images corrupted with additive noise. The filter consists of three stages. (1) Define fuzzy sets in the input space to computes a fuzzy derivative for eight different directions (2) construct a set of IFTHEN rules by to perform fuzzy smoothing according to contributions of neighboring pixel values and (3) define fuzzy sets in the output space to get the filtered and edged image. Experimental results are obtained to show the feasibility of the proposed approach with two dimensional objects.

Keywords: Additive noise, edge preserving filtering, fuzzy image filtering, noise reduction, two dimensional mechanical images.

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Authors: M.Sujaritha, S. Annadurai

Abstract:

An adaptive spatial Gaussian mixture model is proposed for clustering based color image segmentation. A new clustering objective function which incorporates the spatial information is introduced in the Bayesian framework. The weighting parameter for controlling the importance of spatial information is made adaptive to the image content to augment the smoothness towards piecewisehomogeneous region and diminish the edge-blurring effect and hence the name adaptive spatial finite mixture model. The proposed approach is compared with the spatially variant finite mixture model for pixel labeling. The experimental results with synthetic and Berkeley dataset demonstrate that the proposed method is effective in improving the segmentation and it can be employed in different practical image content understanding applications.

Keywords: Adaptive; Spatial, Mixture model, Segmentation, Color.

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Authors: Raghav Lakhotia, Chandra Kanth Nagesh, Krishna Madgula

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A lot has been said and discussed regarding the rationale and significance of the Bechdel Score. It became a digital sensation in 2013, when Swedish cinemas began to showcase the Bechdel test score of a film alongside its rating. The test has drawn criticism from experts and the film fraternity regarding its use to rate the female presence in a movie. The pundits believe that the score is too simplified and the underlying criteria of a film to pass the test must include 1) at least two women, 2) who have at least one dialogue, 3) about something other than a man, is egregious. In this research, we have considered a few more parameters which highlight how we represent females in film, like the number of female dialogues in a movie, dialogue genre, and part of speech tags in the dialogue. The parameters were missing in the existing criteria to calculate the Bechdel score. The research aims to analyze 342 movies scripts to test a hypothesis if these extra parameters, above with the current Bechdel criteria, are significant in calculating the female representation score. The result of the Principal Component Analysis method concludes that the female dialogue content is a key component and should be considered while measuring the representation of women in a work of fiction.

Keywords: Bechdel test, dialogue genre, parts of speech tags, principal component analysis.

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Authors: Hui-Yu Huang, Shih-Hang Hsu

Abstract:

In this paper, we propose a robust scheme to work face alignment and recognition under various influences. For face representation, illumination influence and variable expressions are the important factors, especially the accuracy of facial localization and face recognition. In order to solve those of factors, we propose a robust approach to overcome these problems. This approach consists of two phases. One phase is preprocessed for face images by means of the proposed illumination normalization method. The location of facial features can fit more efficient and fast based on the proposed image blending. On the other hand, based on template matching, we further improve the active shape models (called as IASM) to locate the face shape more precise which can gain the recognized rate in the next phase. The other phase is to process feature extraction by using principal component analysis and face recognition by using support vector machine classifiers. The results show that this proposed method can obtain good facial localization and face recognition with varied illumination and local distortion.

Keywords: Gabor filter, improved active shape model (IASM), principal component analysis (PCA), face alignment, face recognition, support vector machine (SVM)

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Authors: Sundararajan Sangeetha, Joseph Jesu Christopher, Swaminathan Ramakrishnan

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In this work, the primary compressive strength components of human femur trabecular bone are qualitatively assessed using image processing and wavelet analysis. The Primary Compressive (PC) component in planar radiographic femur trabecular images (N=50) is delineated by semi-automatic image processing procedure. Auto threshold binarization algorithm is employed to recognize the presence of mineralization in the digitized images. The qualitative parameters such as apparent mineralization and total area associated with the PC region are derived for normal and abnormal images.The two-dimensional discrete wavelet transforms are utilized to obtain appropriate features that quantify texture changes in medical images .The normal and abnormal samples of the human femur are comprehensively analyzed using Harr wavelet.The six statistical parameters such as mean, median, mode, standard deviation, mean absolute deviation and median absolute deviation are derived at level 4 decomposition for both approximation and horizontal wavelet coefficients. The correlation coefficient of various wavelet derived parameters with normal and abnormal for both approximated and horizontal coefficients are estimated. It is seen that in almost all cases the abnormal show higher degree of correlation than normals. Further the parameters derived from approximation coefficient show more correlation than those derived from the horizontal coefficients. The parameters mean and median computed at the output of level 4 Harr wavelet channel was found to be a useful predictor to delineate the normal and the abnormal groups.

Keywords: Image processing, planar radiographs, trabecular bone and wavelet analysis.

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Authors: András Barta, István Vajk

Abstract:

In pattern recognition applications the low level segmentation and the high level object recognition are generally considered as two separate steps. The paper presents a method that bridges the gap between the low and the high level object recognition. It is based on a Bayesian network representation and network propagation algorithm. At the low level it uses hierarchical structure of quadratic spline wavelet image bases. The method is demonstrated for a simple circuit diagram component identification problem.

Keywords: Object recognition, Bayesian network, Wavelets, Document processing.

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Authors: Lewis E. Hibell, Honghai Liu, David J. Brown

Abstract:

This paper presents the use of a newly created network structure known as a Self-Delaying Dynamic Network (SDN) to create a high resolution image from a set of time stepped input frames. These SDNs are non-recurrent temporal neural networks which can process time sampled data. SDNs can store input data for a lifecycle and feature dynamic logic based connections between layers. Several low resolution images and one high resolution image of a scene were presented to the SDN during training by a Genetic Algorithm. The SDN was trained to process the input frames in order to recreate the high resolution image. The trained SDN was then used to enhance a number of unseen noisy image sets. The quality of high resolution images produced by the SDN is compared to that of high resolution images generated using Bi-Cubic interpolation. The SDN produced images are superior in several ways to the images produced using Bi-Cubic interpolation.

Keywords: Image Enhancement, Neural Networks, Multi-Frame.

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Authors: F. C. Calnegru

Abstract:

This article presents a computationally tractable probabilistic model for the relation between the complex wavelet coefficients of two images of the same scene. The two images are acquisitioned at distinct moments of times, or from distinct viewpoints, or by distinct sensors. By means of the introduced probabilistic model, we argue that the similarity between the two images is controlled not by the values of the wavelet coefficients, which can be altered by many factors, but by the nature of the wavelet coefficients, that we model with the help of hidden state variables. We integrate this probabilistic framework in the construction of a new image registration algorithm. This algorithm has sub-pixel accuracy and is robust to noise and to other variations like local illumination changes. We present the performance of our algorithm on various image types.

Keywords: Complex wavelet transform, image registration, modeling using hidden state variables, probabilistic similaritymeasure.

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Authors: J. Umamaheswari, G. Radhamani

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This paper describes about the process of recognition and classification of brain images such as normal and abnormal based on PSO-SVM. Image Classification is becoming more important for medical diagnosis process. In medical area especially for diagnosis the abnormality of the patient is classified, which plays a great role for the doctors to diagnosis the patient according to the severeness of the diseases. In case of DICOM images it is very tough for optimal recognition and early detection of diseases. Our work focuses on recognition and classification of DICOM image based on collective approach of digital image processing. For optimal recognition and classification Particle Swarm Optimization (PSO), Genetic Algorithm (GA) and Support Vector Machine (SVM) are used. The collective approach by using PSO-SVM gives high approximation capability and much faster convergence.

Keywords: Recognition, classification, Relaxed Median Filter, Adaptive thresholding, clustering and Neural Networks

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Authors: Mamta Juneja, Parvinder S. Sandhu, Ekta Walia

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Steganography is the process of hiding one file inside another such that others can neither identify the meaning of the embedded object, nor even recognize its existence. Current trends favor using digital image files as the cover file to hide another digital file that contains the secret message or information. One of the most common methods of implementation is Least Significant Bit Insertion, in which the least significant bit of every byte is altered to form the bit-string representing the embedded file. Altering the LSB will only cause minor changes in color, and thus is usually not noticeable to the human eye. While this technique works well for 24-bit color image files, steganography has not been as successful when using an 8-bit color image file, due to limitations in color variations and the use of a colormap. This paper presents the results of research investigating the combination of image compression and steganography. The technique developed starts with a 24-bit color bitmap file, then compresses the file by organizing and optimizing an 8-bit colormap. After the process of compression, a text message is hidden in the final, compressed image. Results indicate that the final technique has potential of being useful in the steganographic world.

Keywords: Compression, Colormap, Encryption, Steganographyand LSB Insertion.

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Authors: V. B. Bastos, M. P. Lima, P. R. G. Kurka

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This paper applies to the creation of virtual 3D environments for the study and development of mobile robot image based navigation algorithms and techniques, which need to operate robustly and efficiently. The test of these algorithms can be performed in a physical way, from conducting experiments on a prototype, or by numerical simulations. Current simulation platforms for robotic applications do not have flexible and updated models for image rendering, being unable to reproduce complex light effects and materials. Thus, it is necessary to create a test platform that integrates sophisticated simulated applications of real environments for navigation, with data and image processing. This work proposes the development of a high-level platform for building 3D model’s environments and the test of image-based navigation algorithms for mobile robots. Techniques were used for applying texture and lighting effects in order to accurately represent the generation of rendered images regarding the real world version. The application will integrate image processing scripts, trajectory control, dynamic modeling and simulation techniques for physics representation and picture rendering with the open source 3D creation suite - Blender.

Keywords: Simulation, visual navigation, mobile robot, data visualization.

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Authors: P. Strakos, M. Jaros, T. Karasek, T. Kozubek, P. Vavra, T. Jonszta

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In medical imaging, segmentation of different areas of human body like bones, organs, tissues, etc. is an important issue. Image segmentation allows isolating the object of interest for further processing that can lead for example to 3D model reconstruction of whole organs. Difficulty of this procedure varies from trivial for bones to quite difficult for organs like liver. The liver is being considered as one of the most difficult human body organ to segment. It is mainly for its complexity, shape versatility and proximity of other organs and tissues. Due to this facts usually substantial user effort has to be applied to obtain satisfactory results of the image segmentation. Process of image segmentation then deteriorates from automatic or semi-automatic to fairly manual one. In this paper, overview of selected available software applications that can handle semi-automatic image segmentation with further 3D volume reconstruction of human liver is presented. The applications are being evaluated based on the segmentation results of several consecutive DICOM images covering the abdominal area of the human body.

Keywords: Image segmentation, semi-automatic, software, 3D volumetric reconstruction.

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Authors: Lavanya Srinivasan

Abstract:

Biometric identification is to identify unique features in a person like fingerprints, iris, ear, and voice recognition that need the subject's permission and physical contact. Gait biometric is used to identify the unique gait of the person by extracting moving features. The main advantage of gait biometric to identify the gait of a person at a distance, without any physical contact. In this work, the gait biometric is used for person re-identification. The person walking naturally compared with the same person walking with bag, coat and case recorded using long wave infrared, short wave infrared, medium wave infrared and visible cameras. The videos are recorded in rural and in urban environments. The pre-processing technique includes human identified using You Only Look Once, background subtraction, silhouettes extraction and synthesis Gait Entropy Image by averaging the silhouettes. The moving features are extracted from the Gait Entropy Energy Image. The extracted features are dimensionality reduced by the Principal Component Analysis and recognized using different classifiers. The comparative results with the different classifier show that Linear Discriminant Analysis outperform other classifiers with 95.8% for visible in the rural dataset and 94.8% for longwave infrared in the urban dataset.

Keywords: biometric, gait, silhouettes, You Only Look Once

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Authors: Dibyendu Ghoshal, Pinaki Pratim Acharjya

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Image segmentation process based on mathematical morphology has been studied in the paper. It has been established from the first principles of the morphological process, the entire segmentation is although a nonlinear signal processing task, the constituent wise, the intermediate steps are linear, bilinear and conformal transformation and they give rise to a non linear affect in a cumulative manner.

Keywords: Image segmentation, linear transform, bilinear transform, conformal transform, mathematical morphology.

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Authors: Smajo Bisanovic, Mensur Hajro, Mersiha Samardzic

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This paper presents quantitative component criticality importance indices applicable for identifying and ranking critical components in the phase of thermal power plants design. Identifying critical components for power plant reliability provides one important input to decision-making and guidance throughout the development project. The study of components criticality importance indices to several characteristic structural schemes of conventional thermal power plant is presented and discussed.

Keywords: Component criticality importance measures, discrete event, reliability, thermal power plant.

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Authors: C. Rajan, K. Geetha, S. Geetha

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The motivation of image compression technique is to reduce the irrelevance and redundancy of the image data in order to store or pass data in an efficient way from one place to another place. There are several types of compression methods available. Without the help of compression technique, the file size is knowingly larger, usually several megabytes, but by doing the compression technique, it is possible to reduce file size up to 10% as of the original without noticeable loss in quality. Image compression can be lossless or lossy. The compression technique can be applied to images, audio, video and text data. This research work mainly concentrates on methods of encoding, DCT, compression methods, security, etc. Different methodologies and network simulations have been analyzed here. Various methods of compression methodologies and its performance metrics has been investigated and presented in a table manner.

Keywords: Image compression techniques, encoding, DCT, lossy compression, lossless compression, JPEG.

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Authors: Awais Adnan, Muhammad Nawaz, Sajid Anwar, Tamleek Ali, Muhammad Ali

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Needs of an efficient information retrieval in recent years in increased more then ever because of the frequent use of digital information in our life. We see a lot of work in the area of textual information but in multimedia information, we cannot find much progress. In text based information, new technology of data mining and data marts are now in working that were started from the basic concept of database some where in 1960. In image search and especially in image identification, computerized system at very initial stages. Even in the area of image search we cannot see much progress as in the case of text based search techniques. One main reason for this is the wide spread roots of image search where many area like artificial intelligence, statistics, image processing, pattern recognition play their role. Even human psychology and perception and cultural diversity also have their share for the design of a good and efficient image recognition and retrieval system. A new object based search technique is presented in this paper where object in the image are identified on the basis of their geometrical shapes and other features like color and texture where object-co-relation augments this search process. To be more focused on objects identification, simple images are selected for the work to reduce the role of segmentation in overall process however same technique can also be applied for other images.

Keywords: Object correlation, Geometrical shape, Color, texture, features, contents.

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Authors: András Barta, István Vajk

Abstract:

In pattern recognition applications the low level segmentation and the high level object recognition are generally considered as two separate steps. The paper presents a method that bridges the gap between the low and the high level object recognition. It is based on a Bayesian network representation and network propagation algorithm. At the low level it uses hierarchical structure of quadratic spline wavelet image bases. The method is demonstrated for a simple circuit diagram component identification problem.

Keywords: Object recognition, Bayesian network, Wavelets, Document processing.

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Authors: Shiuh-Jer Huang, Chen-Zon Yan, C. K. Huang, Chun-Chien Ting

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Since the vision system application in industrial environment for autonomous purposes is required intensely, the image recognition technique becomes an important research topic. Here, deep learning algorithm is employed in image system to recognize the industrial object and integrate with a 7A6 Series Manipulator for object automatic gripping task. PC and Graphic Processing Unit (GPU) are chosen to construct the 3D Vision Recognition System. Depth Camera (Intel RealSense SR300) is employed to extract the image for object recognition and coordinate derivation. The YOLOv2 scheme is adopted in Convolution neural network (CNN) structure for object classification and center point prediction. Additionally, image processing strategy is used to find the object contour for calculating the object orientation angle. Then, the specified object location and orientation information are sent to robotic controller. Finally, a six-axis manipulator can grasp the specific object in a random environment based on the user command and the extracted image information. The experimental results show that YOLOv2 has been successfully employed to detect the object location and category with confidence near 0.9 and 3D position error less than 0.4 mm. It is useful for future intelligent robotic application in industrial 4.0 environment.

Keywords: Deep learning, image processing, convolution neural network, YOLOv2, 7A6 series manipulator.

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Authors: Lilac A. E. Al-Safadi

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With the advance of multimedia and diagnostic images technologies, the number of radiographic images is increasing constantly. The medical field demands sophisticated systems for search and retrieval of the produced multimedia document. This paper presents an ongoing research that focuses on the semantic content of radiographic image documents to facilitate semantic-based radiographic image indexing and a retrieval system. The proposed model would divide a radiographic image document, based on its semantic content, and would be converted into a logical structure or a semantic structure. The logical structure represents the overall organization of information. The semantic structure, which is bound to logical structure, is composed of semantic objects with interrelationships in the various spaces in the radiographic image.

Keywords: Semantic Indexing, Content-Based Retrieval, Radiographic Images, Data Model

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Authors: M. Hamad Hassan, S.A.M. Gilani

Abstract:

In this paper, a semi-fragile watermarking scheme is proposed for color image authentication. In this particular scheme, the color image is first transformed from RGB to YST color space, suitable for watermarking the color media. Each channel is divided into 4×4 non-overlapping blocks and its each 2×2 sub-block is selected. The embedding space is created by setting the two LSBs of selected sub-block to zero, which will hold the authentication and recovery information. For verification of work authentication and parity bits denoted by 'a' & 'p' are computed for each 2×2 subblock. For recovery, intensity mean of each 2×2 sub-block is computed and encoded upto six to eight bits depending upon the channel selection. The size of sub-block is important for correct localization and fast computation. For watermark distribution 2DTorus Automorphism is implemented using a private key to have a secure mapping of blocks. The perceptibility of watermarked image is quite reasonable both subjectively and objectively. Our scheme is oblivious, correctly localizes the tampering and able to recovery the original work with probability of near one.

Keywords: Image Authentication, YST Color Space, Intensity Mean, LSBs, PSNR.

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Authors: N. Muthukumaran, R. Ravi

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The Quad Tree Decomposition based performance analysis of compressed image data communication for lossy and lossless through wireless sensor network is presented. Images have considerably higher storage requirement than text. While transmitting a multimedia content there is chance of the packets being dropped due to noise and interference. At the receiver end the packets that carry valuable information might be damaged or lost due to noise, interference and congestion. In order to avoid the valuable information from being dropped various retransmission schemes have been proposed. In this proposed scheme QTD is used. QTD is an image segmentation method that divides the image into homogeneous areas. In this proposed scheme involves analysis of parameters such as compression ratio, peak signal to noise ratio, mean square error, bits per pixel in compressed image and analysis of difficulties during data packet communication in Wireless Sensor Networks. By considering the above, this paper is to use the QTD to improve the compression ratio as well as visual quality and the algorithm in MATLAB 7.1 and NS2 Simulator software tool.

Keywords: Image compression, Compression Ratio, Quad tree decomposition, Wireless sensor networks, NS2 simulator.

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Authors: Yong-Gyu Lee, Gilwon Yoon

Abstract:

Image processing for capsule endoscopy requires large memory and it takes hours for diagnosis since operation time is normally more than 8 hours. A real-time analysis algorithm of capsule images can be clinically very useful. It can differentiate abnormal tissue from health structure and provide with correlation information among the images. Bleeding is our interest in this regard and we propose a method of detecting frames with potential bleeding in real-time. Our detection algorithm is based on statistical analysis and the shapes of bleeding spots. We tested our algorithm with 30 cases of capsule endoscopy in the digestive track. Results were excellent where a sensitivity of 99% and a specificity of 97% were achieved in detecting the image frames with bleeding spots.

Keywords: bleeding, capsule endoscopy, image processing, real time analysis

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Authors: Mousa Mojarrad, Mashallah Abbasi Dezfouli, Amir Masoud Rahmani

Abstract:

Detection and recognition of the Human Body Composition and extraction their measures (width and length of human body) in images are a major issue in detecting objects and the important field in Image, Signal and Vision Computing in recent years. Finding people and extraction their features in Images are particularly important problem of object recognition, because people can have high variability in the appearance. This variability may be due to the configuration of a person (e.g., standing vs. sitting vs. jogging), the pose (e.g. frontal vs. lateral view), clothing, and variations in illumination. In this study, first, Human Body is being recognized in image then the measures of Human Body extract from the image.

Keywords: Analysis of image processing, canny edge detection, classification, feature extraction, human body recognition, segmentation.

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Authors: Kyu-Yeul Wang, Sang-Seol Lee, Jea-Yeon Song, Jea-Young Choi, Seong-Seob Shin, Dong-Sun Kim, Duck-Jin Chung

Abstract:

In this paper, we propose the low-MAC FEC controller for practical implementation of JPEG2000 image transmission using IEEE 802.15.4. The proposed low-MAC FEC controller has very small HW size and spends little computation to estimate channel state. Because of this advantage, it is acceptable to apply IEEE 802.15.4 which has to operate more than 1 year with battery. For the image transmission, we integrate the low-MAC FEC controller and RCPC coder in sensor node of LR-WPAN. The modified sensor node has increase of 3% hardware size than conventional zigbee sensor node.

Keywords: FEC, IEEE 802.15.4, JPEG2000, low-MAC.

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Authors: B. Farahani, R. Fadil, A. Aboonabi, B. Hoffmann, J. Loscheider, K. Tavakolian, S. Arzanpour

Abstract:

Wheelchair users spend long hours in a sitting position, and selecting the right cushion is highly critical in preventing pressure ulcers in that demographic. Pressure Mapping Systems (PMS) are typically used in clinical settings by therapists to identify the sitting profile and pressure points in the sitting area to select the cushion that fits the best for the users. A PMS is a flexible mat composed of arrays of distributed networks of pressure sensors. The output of the PMS systems is a color-coded image that shows the intensity of the pressure concentration. Therapists use the PMS images to compare different cushions fit for each user. This process is highly subjective and requires good visual memory for the best outcome. This paper aims to develop an image processing technique to analyze the images of PMS and provide an objective measure to assess the cushions based on their pressure distribution mappings. In this paper, we first reviewed the skeletal anatomy of the human sitting area and its relation to the PMS image. This knowledge is then used to identify the important features that must be considered in image processing. We then developed an algorithm based on those features to analyze the images and rank them according to their fit to the user's needs. 

Keywords: cushion, image processing, pressure mapping system, wheelchair

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Authors: Sergey A. Burikov, Tatiana A. Dolenko, Kirill A. Gushchin, Sergey A. Dolenko

Abstract:

The paper presents the results of clusterization by Kohonen self-organizing maps (SOM) applied for analysis of array of Raman spectra of multi-component solutions of inorganic salts, for determination of types of salts present in the solution. It is demonstrated that use of SOM is a promising method for solution of clusterization and classification problems in spectroscopy of multicomponent objects, as attributing a pattern to some cluster may be used for recognition of component composition of the object.

Keywords: Kohonen self-organizing maps, clusterization, multicomponent solutions, Raman spectroscopy.

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Authors: Pushpa B. Patil, Manesh B. Kokare

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This paper presents content-based image retrieval (CBIR) frameworks with relevance feedback (RF) based on combined learning of support vector machines (SVM) and AdaBoosts. The framework incorporates only most relevant images obtained from both the learning algorithm. To speed up the system, it removes irrelevant images from the database, which are returned from SVM learner. It is the key to achieve the effective retrieval performance in terms of time and accuracy. The experimental results show that this framework had significant improvement in retrieval effectiveness, which can finally improve the retrieval performance.

Keywords: Image retrieval, relevance feedback, wavelet transform.

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Authors: Talbi Mohammed, Oustous Aziz, Ben Messaoud Mounir, Sebihi Rajaa, Khalis Mohammed

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Background: Breast cancer is the leading cause of death for women around the world. Screening mammography is the reference examination, due to its sensitivity for detecting small lesions and micro-calcifications. Therefore, it is essential to ensure quality mammographic examinations with the most optimal dose. These conditions depend on the choice of exposure parameters. Clinically, practices must be evaluated in order to determine the most appropriate exposure parameters. Material and Methods: We performed our measurements on a mobile mammography unit (PLANMED Sofie-classic.) in Morocco. A solid dosimeter (AGMS Radcal) and a MTM 100 phantom allow to quantify the delivered dose and the image quality. For image quality assessment, scores are defined by the rate of visible inserts (MTM 100 phantom), obtained and compared for each acquisition. Results: The results show that the parameters of the mammography unit on which we have made our measurements can be improved in order to offer a better compromise between image quality and breast dose. The last one can be reduced up from 13.27% to 22.16%, while preserving comparable image quality.

Keywords: Mammography, image quality, breast dose.

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Authors: Ghada Badr, Arwa Alturki

Abstract:

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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