Search results for: equivalent sequences

Authors: Chien-Ju Li, Chun-Hui Yu, Chi-Chuan Hwang, Tsunglin Liu , Darby Tien-Hao Chang

Abstract:

De novo genome assembly is always fragmented. Assembly fragmentation is more serious using the popular next generation sequencing (NGS) data because NGS sequences are shorter than the traditional Sanger sequences. As the data throughput of NGS is high, the fragmentations in assemblies are usually not the result of missing data. On the contrary, the assembled sequences, called contigs, are often connected to more than one other contigs in a complicated manner, leading to the fragmentations. False connections in such complicated connections between contigs, named a contig graph, are inevitable because of repeats and sequencing/assembly errors. Simplifying a contig graph by removing false connections directly improves genome assembly. In this work, we have developed a tool, SIMGraph, to resolve ambiguous connections between contigs using NGS data. Applying SIMGraph to the assembly of a fungus and a fish genome, we resolved 27.6% and 60.3% ambiguous contig connections, respectively. These results can reduce the experimental efforts in resolving contig connections.

Keywords: Contig graph, NGS, de novo assembly, scaffold.

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Authors: G. H. Majzoob, B. Sharifi Hamadani

Abstract:

Mapping between local and global coordinates is an important issue in finite element method, as all calculations are performed in local coordinates. The concern arises when subparametric are used, in which the shape functions of the field variable and the geometry of the element are not the same. This is particularly the case for C* elements in which the extra degrees of freedoms added to the nodes make the elements sub-parametric. In the present work, transformation matrix for C1* (an 8-noded hexahedron element with 12 degrees of freedom at each node) is obtained using equivalent C0 elements (with the same number of degrees of freedom). The convergence rate of 8-noded C1* element is nearly equal to its equivalent C0 element, while it consumes less CPU time with respect to the C0 element. The existence of derivative degrees of freedom at the nodes of C1* element along with excellent convergence makes it superior compared with it equivalent C0 element.

Keywords: Mapping, Finite element method, C* elements, Convergence, C0 elements.

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Authors: G.K.Panda, S.S.Rout

Abstract:

The balancing numbers are natural numbers n satisfying the Diophantine equation 1 + 2 + 3 + · · · + (n - 1) = (n + 1) + (n + 2) + · · · + (n + r); r is the balancer corresponding to the balancing number n.The nth balancing number is denoted by Bn and the sequence {Bn}1 n=1 satisfies the recurrence relation Bn+1 = 6Bn-Bn-1. The balancing numbers posses some curious properties, some like Fibonacci numbers and some others are more interesting. This paper is a study of recurrent sequence {xn}1 n=1 satisfying the recurrence relation xn+1 = Axn - Bxn-1 and possessing some curious properties like the balancing numbers.

Keywords: Recurrent sequences, Balancing numbers, Lucas balancing numbers, Binet form.

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Authors: M. Ghareh, L. Sepahi

Abstract:

Temperature rise in a transformer depends on variety of parameters such as ambient temperature, output current and type of the core. Considering these parameters, temperature rise estimation is still complicated procedure. In this paper, we present a new model based on simple electrical equivalent circuit. This method avoids the complication associated to accurate estimation and is in very good agreement with practice.

Keywords: Thermal modeling, temperature rise, equivalent thermal circuit.

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Authors: M. Salih Taci, N. Tayebi, I. Bozkır

Abstract:

In this paper, the equivalent circuit of the ideal single-phase power transformer with its appropriate voltage current measurement was presented. The calculated values of the voltages and currents of the different connections single phase normal transformer and the results of the simulation process are compared. As it can be seen, the calculated results are the same as the simulated results. This paper includes eight possible different transformer connections. Depending on the desired voltage level, step-down and step-up application transformer is considered. Modelling and analysis of a system consisting of an equivalent source, transformer (primary and secondary), and loads are performed to investigate the combinations. The obtained values are simulated in PSpice environment and then how the currents, voltages and phase angle are distributed between them is explained based on calculation.

Keywords: Transformer, simulation, equivalent model, parallel series combinations.

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Authors: Zhaohao Wang, Lan Shu

Abstract:

In this paper, we generalize some propositions in [C.Z. Wang, D.G. Chen, A short note on some properties of rough groups, Comput. Math. Appl. 59(2010)431-436.] and we give some equivalent conditions for rough subgroups. The notion of minimal upper rough subgroups is introduced and a equivalent characterization is given, which implies the rough version of Lagranges Theorem.

Keywords: Lower approximations, Upper approximations, Rough sets, Rough groups, Lagrange

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Authors: Shigeaki Sakurai, Makino Kyoko, Shigeru Matsumoto

Abstract:

This paper proposes a method that predicts attractive evaluation objects. In the learning phase, the method inductively acquires trend rules from complex sequential data. The data is composed of two types of data. One is numerical sequential data. Each evaluation object has respective numerical sequential data. The other is text sequential data. Each evaluation object is described in texts. The trend rules represent changes of numerical values related to evaluation objects. In the prediction phase, the method applies new text sequential data to the trend rules and evaluates which evaluation objects are attractive. This paper verifies the effect of the proposed method by using stock price sequences and news headline sequences. In these sequences, each stock brand corresponds to an evaluation object. This paper discusses validity of predicted attractive evaluation objects, the process time of each phase, and the possibility of application tasks.

Keywords: Trend rule, frequent pattern, numerical sequential data, text sequential data, evaluation object.

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Authors: Xie Kefeng, Zhang He

Abstract:

For the stability and control demand of offshore small floating platform, a 2-HUS/U parallel mechanism was presented as offshore platform. Inverse kinematics was obtained by institutional constraint equation, and the dynamic model of offshore 2-HUS/U parallel platform was derived based on rigid body’s Lagrangian method. The equivalent moment of inertia, damping and driving force/torque variation of offshore 2-HUS/U parallel platform were analyzed. A numerical example shows that, for parallel platform of given motion, system’s equivalent inertia changes 1.25 times maximally. During the movement of platform, they change dramatically with the system configuration and have coupling characteristics. The maximum equivalent drive torque is 800 N. At the same time, the curve of platform’s driving force/torque is smooth and has good sine features. The control system needs to be adjusted according to kinetic equation during stability and control and it provides a basis for the optimization of control system.

Keywords: 2-HUS/U platform, Dynamics, Lagrange, Parallel platform.

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Authors: R. J. Parham, J. D. Knight

Abstract:

Organic farmers across Saskatchewan face soil phosphorus (P) shortages. Due to the restriction on inputs in organic systems, farmers rely on crop rotation and naturally-occurring arbuscular mycorrhizal fungi (AMF) for plant P supply. Crop rotation is important for disease, pest, and weed management. Crops that are not colonized by AMF (non-mycorrhizal) can decrease colonization of a following crop. An experiment was performed to quantify soil P cycling in four cropping sequences under organic management and determine if mustard (non-mycorrhizal) was delaying the colonization of subsequent wheat. Soils from the four cropping sequences were measured for inorganic soil P (Pi), AMF spore density (SD), phospholipid fatty acid analysis (PLFA, for AMF biomarker counts), and alkaline phosphatase activity (ALPase, related to AMF metabolic activity). Plants were measured for AMF colonization and P content and uptake of above-ground biomass. A lack of difference in AMF activity indicated that mustard was not depressing colonization. Instead, AMF colonization was largely determined by crop type and crop rotation.

Keywords: Arbuscular mycorrhizal fungi, crop rotation, organic farming, phosphorous, soil microbiology.

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Authors: Ridha Salhi, Mondher Labidi, Fethi Choubani

Abstract:

Metamaterials have attracted much attention in recent years because of their electromagnetic exquisite proprieties. We will present, in this paper, the modeling of three metamaterial structures by equivalent circuit model. We begin by modeling the SRR (Split Ring Resonator), then we model the HIS (High Impedance Surfaces), and finally, we present the model of the CPW (Coplanar Wave Guide). In order to validate models, we compare the results obtained by an equivalent circuit models with numerical simulation.

Keywords: Metamaterials, SRR, HIS, CPW, IDC.

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Authors: S. Sutor, R. Röhr, G. Pujolle, R. Reda

Abstract:

This paper presents a highly efficient algorithm for detecting and tracking humans and objects in video surveillance sequences. Mean shift clustering is applied on backgrounddifferenced image sequences. For efficiency, all calculations are performed on integral images. Novel corresponding exponential integral kernels are introduced to allow the application of nonuniform kernels for clustering, which dramatically increases robustness without giving up the efficiency of the integral data structures. Experimental results demonstrating the power of this approach are presented.

Keywords: Clustering, Integral Images, Kernels, Person Detection, Person Tracking, Intelligent Video Surveillance.

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Authors: Himanshu V. Gajjar, Anish H. Gandhi, Tanvir A Jafri, Harit K. Raval

Abstract:

Bendability is constrained by maximum top roller load imparting capacity of the machine. Maximum load is encountered during the edge pre-bending stage of roller bending. Capacity of 3-roller plate bending machine is specified by maximum thickness and minimum shell diameter combinations that can be pre-bend for given plate material of maximum width. Commercially available plate width or width of the plate that can be accommodated on machine decides the maximum rolling width. Original equipment manufacturers (OEM) provide the machine capacity chart based on reference material considering perfectly plastic material model. Reported work shows the bendability analysis of heavy duty 3-roller plate bending machine. The input variables for the industry are plate thickness, shell diameter and material property parameters, as it is fixed by the design. Analytical models of equivalent thickness, equivalent width and maximum width based on power law material model were derived to study the bendability. Equation of maximum width provides bendability for designed configuration i.e. material property, shell diameter and thickness combinations within the machine limitations. Equivalent thicknesses based on perfectly plastic and power law material model were compared for four different materials grades of C-Mn steel in order to predict the bend-ability. Effect of top roller offset on the bendability at maximum top roller load imparting capacity is reported.

Keywords: 3-Roller bending, Bendability, Equivalent thickness, Equivalent width, Maximum width.

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Authors: J. Trarbach, S. Schosser, B. Vogt

Abstract:

Decision-makers tend to prefer the first alternative over subsequent alternatives which is called the primacy effect. To reliably measure this effect, we conducted an experiment with real consequences for preference statements. Therefore, we elicit preferences of subjects using a rating scale, i.e. hypothetical preferences, and willingness to pay, i.e. real preferences, for two sequences of pain. Within these sequences, both overall intensity and duration of pain are identical. Hence, a rational decision-maker should be indifferent, whereas the primacy effect predicts a stronger preference for the first sequence. What we see is a primacy effect only for hypothetical preferences. This effect vanishes for real preferences.

Keywords: Decision making, primacy effect, real incentives, willingness to pay.

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Authors: Parvinder S. Sandhu, Iqbaldeep Kaur, Amit Verma, Inderpreet Kaur, Birinderjit S. Kalyan

Abstract:

This work is a proposed model of CMOS for which the algorithm has been created and then the performance evaluation of this proposition has been done. In this context, another commonly used model called ZSTT (Zero Switching Time Transient) model is chosen to compare all the vital features and the results for the Proposed Equivalent CMOS are promising. In the end, the excerpts of the created algorithm are also included

Keywords: Dual Capacitor Model, ZSTT, CMOS, SPICEMacro-Model.

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Authors: Chao Wang, Ting-Zhu Huang, Chen Jia

Abstract:

In this paper, we present a simplified higher-order Markov chain model for multiple categorical data sequences also called as simplified higher-order multivariate Markov chain model.

Keywords: Higher-order multivariate Markov chain model, Categorical data sequences, Multivariate Markov chain.

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Authors: Ming-Chu Yin, Ping-An Du

Abstract:

The shielding ability of a shielding cavity with an aperture will be greatly degraded at resonance frequencies, and the resonance modes and frequencies are affected by aperture resonances and aperture-cavity coupling, which are closely related with aperture sizes. The equivalent circuit method and numerical method of Transmission Line Matrix (TLM) are used to analyze the effects of aperture resonances and aperture-cavity coupling on the electromagnetic resonances of a cavity with an aperture in this paper. Both analytical and numerical results show that the resonance modes of a shielding cavity with an aperture consist of cavity resonance modes and aperture resonance modes, and the resonance frequencies will shift with the change of the aperture sizes because of the aperture resonances and aperture-cavity coupling. Variation rules of electromagnetic resonances with aperture sizes for a cavity with an aperture are given, which will be useful for design of shielding cavities.

Keywords: Aperture-cavity coupling, equivalent circuit method, resonances, shielding equipment.

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Authors: Gemma A. Gruyal

Abstract:

Plants can contain a wide variety of substances with antioxidative properties which are associated with important health benefits. These positive health effects are of great importance at a time when the environment is laden with many toxic substances. Five selected herbal plants namely, Mimosa pudica, Phyllanthus niruri, Ceiba pentandra, Eleusine polydactyla and Trema amboinensi, were chosen for the experiment to investigate their total phenolics content and antioxidant activities using ABTS radical cation decolorization power, and ferric reducing antioxidant power. The total phenolic content of each herbal plants ranges from 0.84 to 42.59 mg gallic acid equivalent/g. The antioxidant activity in the ABTS radical cation decolorization power varies from 0.005 to 0.362 mg trolox equivalent/g and the FRAP ranges from 0.30 to 28.42 mg gallic acid equivalent/g. Among the five medicinal plants, Mimosa pudica has been an excellent performer in terms of the 3 parameters measured; it is followed by Phyllanthus niruri. The 5 herbal plants do not have equivalent antioxidant power. The relative high values for M. pudica and P. niruri supports the medicinal value of both plants. The total phenolics, ABTS and FRAP correlate strongly with one another.

Keywords: ABTS, FRAP, leaf extracts, phenol.

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Authors: Nora A. Naguib, Ahmed E. Hussein, Hesham A. Keshk, Mohamed I. El-Adawy

Abstract:

Classification of video sequences based on their contents is a vital process for adaptation techniques. It helps decide which adaptation technique best fits the resource reduction requested by the client. In this paper we used the principal feature analysis algorithm to select a reduced subset of video features. The main idea is to select only one feature from each class based on the similarities between the features within that class. Our results showed that using this feature reduction technique the source video features can be completely omitted from future classification of video sequences.

Keywords: Adaptation, feature selection, H.264, Principal Feature Analysis (PFA)

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Authors: Jung Ho Yang, Yong Soo Kim

Abstract:

Electrical units are operated by electrical and electronic components. An environmental test sequence is useful for testing electrical units to reduce reliability issues. This study introduces test sequence guidelines based on relevant principles and considerations for electronic testing according to International Standard IEC-60068-1 and the United States Military Standard MIL-STD-810G. Test sequences were then proposed based on the descriptions for each test. Finally, General Motors (GM) specification GMW3172 was interpreted and compared to IEC-60068-1 and MIL-STD-810G.

Keywords: Reliability, Environmental test sequence, Electrical units, IEC 60068-1, MIL-STD-810G.

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Authors: P. Nagendra, S. Halder nee Dey, S. Paul, T. Datta

Abstract:

This paper presents a methodology to assess the voltage stability status combined with optimal power flow technique using an instantaneous two-bus equivalent model of power system incorporating static var compensator (SVC) and thyristor controlled series compensator (TCSC) controllers. There by, a generalized global voltage stability indicator being developed has been applied to a robust practical Indian Eastern Grid 203-bus system. Simulation results have proved that the proposed methodology is promising to assess voltage stability of any power system at any operating point in global scenario. Voltage stability augmentation with the application of SVC at the weakest bus and TCSC at critical line connected to the weakest bus is compared with the system having no compensation. In the proposed network equivalent model the generators have been modeled more accurately considering economic criteria.

Keywords: Equivalent two-bus model, global voltage security indicator, optimal power flow, SVC, TCSC.

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Authors: Kaman M. O., Celik N.

Abstract:

In this study, stress distributions on dental implants made of functionally graded biomaterials (FGBM) are investigated numerically. The implant body is considered to be subjected to axial compression loads. Numerical problem is assumed to be 2D, and ANSYS commercial software is used for the analysis. The cross section of the implant thread varies as varying the height (H) and the width (t) of the thread. According to thread dimensions of implant and material properties of FGBM, equivalent stress distribution on the implant is determined and presented with contour plots along with the maximum equivalent stress values. As a result, with increasing material gradient parameter (n), the equivalent stress decreases, but the minimum stress distribution increases. Maximum stress values decrease with decreasing implant radius (r). Maximum von Mises stresses increases with decreasing H when t is constant. On the other hand, the stress values are not affected by variation of t in the case of H = constant.

Keywords: Functionally graded biomaterials, dental implant finite element method.

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Authors: G. Nur

Abstract:

Monitored 3-Dimensional (3D) video experience can be utilized as “feedback information” to fine tune the service parameters for providing a better service to the demanding 3D service customers. The 3D video experience which includes both video quality and depth perception is influenced by several contextual and content related factors (e.g., ambient illumination condition, content characteristics, etc) due to the complex nature of the 3D video. Therefore, effective factors on this experience should be utilized while assessing it. In this paper, structural information of the depth map sequences of the 3D video is considered as content related factor effective on the depth perception assessment. Cartoon-like filter is utilized to abstract the significant depth levels in the depth map sequences to determine the structural information. Moreover, subjective experiments are conducted using 3D videos associated with cartoon-like depth map sequences to investigate the effectiveness of ambient illumination condition, which is a contextual factor, on depth perception. Using the knowledge gained through this study, 3D video experience metrics can be developed to deliver better service to the 3D video service users. 

Keywords: 3D Video, Ambient Illumination, Cartoon Effect, Depth Perception.

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Authors: Robersy Sánchez, Ricardo Grau

Abstract:

A plausible architecture of an ancient genetic code is derived from an extended base triplet vector space over the Galois field of the extended base alphabet {D, G, A, U, C}, where the letter D represent one or more hypothetical bases with unspecific pairing. We hypothesized that the high degeneration of a primeval genetic code with five bases and the gradual origin and improvements of a primitive DNA repair system could make possible the transition from the ancient to the modern genetic code. Our results suggest that the Watson-Crick base pairing and the non-specific base pairing of the hypothetical ancestral base D used to define the sum and product operations are enough features to determine the coding constraints of the primeval and the modern genetic code, as well as the transition from the former to the later. Geometrical and algebraic properties of this vector space reveal that the present codon assignment of the standard genetic code could be induced from a primeval codon assignment. Besides, the Fourier spectrum of the extended DNA genome sequences derived from the multiple sequence alignment suggests that the called period-3 property of the present coding DNA sequences could also exist in the ancient coding DNA sequences.

Keywords: Genetic code vector space, primeval genetic code, power spectrum.

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Authors: Kazuki Murakami, Takashige Nakamura, Noriko Sakamoto, Kunio Aizawa

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A Watson-Crick automaton is recently introduced as a computational model of DNA computing framework. It works on tapes consisting of double stranded sequences of symbols. Symbols placed on the corresponding cells of the double-stranded sequences are related by a complimentary relation. In this paper, we investigate a variation of Watson-Crick automata in which both heads read the tape in reverse directions. They are called reverse Watson-Crick finite automata (RWKFA). We show that all of following four classes, i.e., simple, 1-limited, all-final, all-final and simple, are equal to non-restricted version of RWKFA.

Keywords: automaton, DNA computing, formal languages, Watson-Crick automaton

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Authors: Arash Mir Abdolah Lavasani, Hamidreza Bayat

Abstract:

Heat transfer from two cam shape cylinder in side-byside arrangement had been studied numerically. The transverse gap between the centers of cylinders (T) is allowed to vary to change the pitch ratio (T/Deq). The equivalent diameter of the cylinder (Deq) is 27.6 mm and pitch ratio varies in range of 1≤T/Deq≤3. The Reynolds numbers based on equivalent circular cylinder are within 50≤ Reeq≤150. Results show that Nusselt number of cylinders increases about 1 to 36 percent when pitch ratio increases from 1 to 3.

Keywords: Cam shaped, side-by-side cylinders, numerical, heat Transfer.

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Authors: Layal Al Ait, Eduardo Corel, Kifah Tout, Burkhard Morgenstern

Abstract:

Background: Dialign is a DNA/Protein alignment tool for performing pairwise and multiple pairwise alignments through the comparison of gap-free segments (fragments) between sequence pairs. An alignment of two sequences is a chain of fragments, i.e local gap-free pairwise alignments, with the highest total score. METHOD: A new approach is defined in this article which relies on the concept of using three-dimensional fragments – i.e. local threeway alignments -- in the alignment process instead of twodimensional ones. These three-dimensional fragments are gap-free alignments constituting of equal-length segments belonging to three distinct sequences. RESULTS: The obtained results showed good improvments over the performance of DIALIGN.

Keywords: DIALIGN, Multiple sequence alignment, Threedimensional fragments.

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Authors: Sang Hyun Kim

Abstract:

In this paper, a fast motion compensation algorithm is proposed that improves coding efficiency for video sequences with brightness variations. We also propose a cross entropy measure between histograms of two frames to detect brightness variations. The framewise brightness variation parameters, a multiplier and an offset field for image intensity, are estimated and compensated. Simulation results show that the proposed method yields a higher peak signal to noise ratio (PSNR) compared with the conventional method, with a greatly reduced computational load, when the video scene contains illumination changes.

Keywords: Motion estimation, Fast motion compensation, Brightness variation compensation, Brightness change detection, Cross entropy.

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Authors: Hamidreza Bayat, Arash Mirabdolah Lavasani, Meysam Bolhasani, Sajad Moosavi

Abstract:

Flow around a flat tube is studied numerically. Reynolds number is defined base on equivalent circular tube and it is varied in range of 100 to 300. Equations are solved by using finite volume method and results are presented in form of drag and lift coefficient. Results show that drag coefficient of flat tube is up to 66% lower than circular tube with equivalent diameter. In addition, by increasing l/D from 1 to 2, the drag coefficient of flat tube is decreased about 14-27%.

Keywords: Laminar flow, flat-tube, drag coefficient, cross-flow, heat exchanger.

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Authors: Nga-Viet Nguyen, Georgy Shevlyakov, Vladimir Shin

Abstract:

To solve the problem of multisensor data fusion under non-Gaussian channel noise. The advanced M-estimates are known to be robust solution while trading off some accuracy. In order to improve the estimation accuracy while still maintaining the equivalent robustness, a two-stage robust fusion algorithm is proposed using preliminary rejection of outliers then an optimal linear fusion. The numerical experiments show that the proposed algorithm is equivalent to the M-estimates in the case of uncorrelated local estimates and significantly outperforms the M-estimates when local estimates are correlated.

Keywords: Data fusion, estimation, robustness, M-estimates.

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Authors: Gulgassyl Nugmanova, Zhanat Zhunussova, Kuralay Yesmakhanova, Galya Mamyrbekova, Ratbay Myrzakulov

Abstract:

In this paper, we consider some integrable Heisenberg Ferromagnet Equations with self-consistent potentials. We study their Lax representations. In particular we derive their equivalent counterparts in the form of nonlinear Schr¨odinger type equations. We present the integrable reductions of the Heisenberg Ferromagnet Equations with self-consistent potentials. These integrable Heisenberg Ferromagnet Equations with self-consistent potentials describe nonlinear waves in ferromagnets with some additional physical fields.

Keywords: Spin systems, equivalent counterparts, integrable reductions, self-consistent potentials.

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