Mateda-2.0: Estimation of Distribution Algorithms in MATLAB

This paper describes Mateda-2.0, a MATLAB package for estimation of distribution algorithms (EDAs). This package can be used to solve single and multi-objective discrete and continuous optimization problems using EDAs based on undirected and directed probabilistic graphical models. The implementation contains several methods commonly employed by EDAs. It is also conceived as an open package to allow users to incorporate different combinations of selection, learning, sampling, and local search procedures. Additionally, it includes methods to extract, process and visualize the structures learned by the probabilistic models. This way, it can unveil previously unknown information about the optimization problem domain. Mateda-2.0 also incorporates a module for creating and validating function models based on the probabilistic models learned by EDAs.

Displacive To Order-Disorder Two-Step Phase Transition Model For Para-Ferroelectric Transition

Two-step phase transition model, displacive to order-disorder, is proposed. The driving forces for these two transitions are fundamentally different. The displacive phase transition is one type of the structural phase transitions. We clearly define the structural phase transition as the symmetry broking of the unit cell and the electric dipole starts to form in the unit cell. Then the dipole-dipole interaction takes place as soon as the dipoles in unit cells are formed. We believe that the dipole-dipole interaction may cause an order-disorder phase transition following the displacive phase transition. Both structural and order-disorder phase transition can be first-order or second-order or in between. We found that the structural transition temperatures can be lower or equal or higher than the order-disorder transition temperature. The para-ferroelectric phase transition is the combination of the displacive and order-disorder phase transitions. It generates a variety of transition configurations along with confusions. In this paper, we discuss all these configurations using our displacive to order-disorder two-step phase transition model and clarified all the confusions.

Extending Distance-based Ranking Models In Estimation of Distribution Algorithms

Recently, probability models on rankings have been proposed in the field of estimation of distribution algorithms in order to solve permutation-based combinatorial optimisation problems. Particularly, distance-based ranking models, such as Mallows and Generalized Mallows under the Kendall’s-t distance, have demonstrated their validity when solving this type of problems. Nevertheless, there are still many trends that deserve further study. In this paper, we extend the use of distance-based ranking models in the framework of EDAs by introducing new distance metrics such as Cayley and Ulam. In order to analyse the performance of the Mallows and Generalized Mallows EDAs under the Kendall, Cayley and Ulam distances, we run them on a benchmark of 120 instances from four well known permutation problems. The conducted experiments showed that there is not just one metric that performs the best in all the problems. However, the statistical test pointed out that Mallows-Ulam EDA is the most stable algorithm among the studied proposals.

Productivity estimation of Ologe Lagoon, Lagos

One of the paradigms in the management of fish resources is that annual yield is a function of water quality. Consequently, the use of shorthand methods for predicting yields from morphological and /or edaphic factors of the water body are most appropriate for tropical multi-species fisheries. In this study, the morpho-edaphic index (MEI) was used to estimate the productivity of Ologe lagoon (Nigeria). The predicted yield was 73.8 kg ha super(-1) yr super(-1) and a comparison with yields in other African waters showed that Ologe lagoon is highly productive. However, its potential is not fully harnessed due to the traditional nature of the fishing

Estimation and inference for grasping and manipulation tasks using vision and kinesthetic sensors

This thesis presents a novel framework for state estimation in the context of robotic grasping and manipulation. The overall estimation approach is based on fusing various visual cues for manipulator tracking, namely appearance and feature-based, shape-based, and silhouette-based visual cues. Similarly, a framework is developed to fuse the above visual cues, but also kinesthetic cues such as force-torque and tactile measurements, for in-hand object pose estimation. The cues are extracted from multiple sensor modalities and are fused in a variety of Kalman filters.

A hybrid estimator is developed to estimate both a continuous state (robot and object states) and discrete states, called contact modes, which specify how each finger contacts a particular object surface. A static multiple model estimator is used to compute and maintain this mode probability. The thesis also develops an estimation framework for estimating model parameters associated with object grasping. Dual and joint state-parameter estimation is explored for parameter estimation of a grasped object's mass and center of mass. Experimental results demonstrate simultaneous object localization and center of mass estimation.

Dual-arm estimation is developed for two arm robotic manipulation tasks. Two types of filters are explored; the first is an augmented filter that contains both arms in the state vector while the second runs two filters in parallel, one for each arm. These two frameworks and their performance is compared in a dual-arm task of removing a wheel from a hub.

This thesis also presents a new method for action selection involving touch. This next best touch method selects an available action for interacting with an object that will gain the most information. The algorithm employs information theory to compute an information gain metric that is based on a probabilistic belief suitable for the task. An estimation framework is used to maintain this belief over time. Kinesthetic measurements such as contact and tactile measurements are used to update the state belief after every interactive action. Simulation and experimental results are demonstrated using next best touch for object localization, specifically a door handle on a door. The next best touch theory is extended for model parameter determination. Since many objects within a particular object category share the same rough shape, principle component analysis may be used to parametrize the object mesh models. These parameters can be estimated using the action selection technique that selects the touching action which best both localizes and estimates these parameters. Simulation results are then presented involving localizing and determining a parameter of a screwdriver.

Lastly, the next best touch theory is further extended to model classes. Instead of estimating parameters, object class determination is incorporated into the information gain metric calculation. The best touching action is selected in order to best discern between the possible model classes. Simulation results are presented to validate the theory.

Engineering multi-step electron tunneling systems in proteins

Multi-step electron tunneling, or “hopping,” has become a fast-developing research field with studies ranging from theoretical modeling systems, inorganic complexes, to biological systems. In particular, the field is exploring hopping mechanisms in new proteins and protein complexes, as well as further understanding the classical biological hopping systems such as ribonuclease reductase, DNA photolyases, and photosystem II. Despite the plethora of natural systems, only a few biologically engineered systems exist. Engineered hopping systems can provide valuable information on key structural and electronic features, just like other kinds of biological model systems. Also, engineered systems can harness common biologic processes and utilize them for alternative reactions. In this thesis, two new hopping systems are engineered and characterized.

The protein Pseudomonas aeruginosa azurin is used as a building block to create the two new hopping systems. Besides being well studied and amenable to mutation, azurin already has been used to successfully engineer a hopping system. The two hopping systems presented in this thesis have a histidine-attached high potential rhenium 4,7-dimethyl-1,10-phenanthroline tricarbonyl [Re(dmp)(CO)3] + label which, when excited, acts as the initial electron acceptor. The metal donor is the type I copper of the azurin protein. The hopping intermediates are all tryptophan, an amino acid mutated into the azurin at select sites between the photoactive metal label and the protein metal site. One system exhibits an inter-molecular hopping through a protein dimer interface; the other system undergoes intra-molecular multi-hopping utilizing a tryptophan “wire.” The electron transfer reactions are triggered by excitation of the rhenium label and monitored by UV-Visible transient absorption, luminescence decays measurements, and time-resolved Infrared spectroscopy (TRIR). Both systems were structurally characterized by protein X-ray crystallography.

1976 step in the Pacific climate: forty environmental changes between 1968-1975 and 1977-1984

Examination of 40 time series of multidisciplinary environmental variables from the Pacific Ocean and the Americas, collected in 1968 to 1984, demonstrated the remarkable consistency of a major climate-related, step-like change in 1976. To combine the 40 variables (e.g., air and water temperatures, Southern Oscillation, chlorophyll, geese, salmon, crabs, glaciers, atmospheric dust, coral, carbon dioxide, winds, ice cover, Bering Strait transport) into a single time series, standard variants of individual annual values (subtracting the mean and dividing by a standard deviation) were averaged. Analysis of the resulting time series showed that the single step in 1976, separating the 1968-1975 period from the 1977-1984 period, accounted for 89% of variance within the composite time series. Apparently, one of the Earth's large ecosystems occasionally undergoes large abrupt shifts.

Estimation of growth and financial analysis through the application of Ipil ipil (Leucaena leucocephala) leaf meal as supplements to soybean and fish meal in the diet of juvenile monosex tilapia (Oreochromis niloticus)

Among plant protein ingredients,ipil ipil (Leucaena leucocephala) leafmeal (ILLM) is considered the most nutritive plant protein source after soybean meal in aquatic feeds. That was proven in a 21-day experiment conducted to assess the response of juvenile Monosex Nile tilapia Oreochromis niloticus with four iso-nitrogenous formulated diets: One control diet was formulated based on fishmeal, one on soybean meal and one on rice bran, ipil ipil leafmeal was also included in experimental diets.

Value Estimation and Comparison in Multi-Attribute Choice

The following work explores the processes individuals utilize when making multi-attribute choices. With the exception of extremely simple or familiar choices, most decisions we face can be classified as multi-attribute choices. In order to evaluate and make choices in such an environment, we must be able to estimate and weight the particular attributes of an option. Hence, better understanding the mechanisms involved in this process is an important step for economists and psychologists. For example, when choosing between two meals that differ in taste and nutrition, what are the mechanisms that allow us to estimate and then weight attributes when constructing value? Furthermore, how can these mechanisms be influenced by variables such as attention or common physiological states, like hunger?

In order to investigate these and similar questions, we use a combination of choice and attentional data, where the attentional data was collected by recording eye movements as individuals made decisions. Chapter 1 designs and tests a neuroeconomic model of multi-attribute choice that makes predictions about choices, response time, and how these variables are correlated with attention. Chapter 2 applies the ideas in this model to intertemporal decision-making, and finds that attention causally affects discount rates. Chapter 3 explores how hunger, a common physiological state, alters the mechanisms we utilize as we make simple decisions about foods.

Discussions about FFT-based two-step phase-shifting algorithm

An FFT-based two-step phase-shifting (TPS) algorithm is described in detail and implemented by use of experimental interferograms. This algorithm has been proposed to solve the TPS problem with random phase shift except pi. By comparison with the visibility-function-based TPS algorithm, it proves that the FFT-based algorithm has obvious advantages in phase extracting. Meanwhile, we present a pi-phase-shift supplement to the TPS algorithm, which combines the two interferograms and demodulates the phase map by locating the extrema of the combined fringes after removing the respective backgrounds. So combining this method and FFT-based one, one could really implement the TPS with random phase shift. Whereafter, we systematically compare the TPS with single-interferogram analysis algorithm and conventional three-step phase-shifting one. The results demonstrate that the FFT-based TPS algorithm has a satisfactory accuracy. At last, based on the polarizing interferometry, a schematic setup of two-channel TPS interferometer with random phase shift is suggested to implement the simultaneous collection of interferograms. (c) 2007 Elsevier GrnbH. All rights reserved.

Algorithm of far-field centre estimation based on phase-only matched filter

Estimation of the far-field centre is carried out in beam auto-alignment. In this paper, the features of the far-field of a square beam are presented. Based on these features, a phase-only matched filter is designed, and the algorithm of centre estimation is developed. Using the simulated images with different kinds of noise and the 40 test images that are taken in sequence, the accuracy of this algorithm is estimated. Results show that the error is no more than one pixel for simulated noise images with a 99% probability, and the stability is restricted within one pixel for test images. Using the improved algorithm, the consumed time is reduced to 0.049 s.

Contributions to the efficient use of general purpose coprocessors: kernel density estimation as case study

142 p.

Estimation of the growth curve parameters in Macrobrachium rosenbergii

Growth is one of the most important characteristics of cultured species. The objective of this study was to determine the fitness of linear, log linear, polynomial, exponential and Logistic functions to the growth curves of Macrobrachium rosenbergii obtained by using weekly records of live weight, total length, head length, claw length, and last segment length from 20 to 192 days of age. The models were evaluated according to the coefficient of determination (R2), and error sum off square (ESS) and helps in formulating breeders in selective breeding programs. Twenty full-sib families consisting 400 PLs each were stocked in 20 different hapas and reared till 8 weeks after which a total of 1200 animals were transferred to earthen ponds and reared up to 192 days. The R2 values of the models ranged from 56 – 96 in case of overall body weight with logistic model being the highest. The R2 value for total length ranged from 62 to 90 with logistic model being the highest. In case of head length, the R2 value ranged between 55 and 95 with logistic model being the highest. The R2 value for claw length ranged from 44 to 94 with logistic model being the highest. For last segment length, R2 value ranged from 55 – 80 with polynomial model being the highest. However, the log linear model registered low ESS value followed by linear model for overall body weight while exponential model showed low ESS value followed by log linear model in case of head length. For total length the low ESS value was given by log linear model followed by logistic model and for claw length exponential model showed low ESS value followed by log linear model. In case of last segment length, linear model showed lowest ESS value followed by log linear model. Since, the model that shows highest R2 value with low ESS value is generally considered as the best fit model. Among the five models tested, logistic model, log linear model and linear models were found to be the best models for overall body weight, total length and head length respectively. For claw length and last segment length, log linear model was found to be the best model. These models can be used to predict growth rates in M. rosenbergii. However, further studies need to be conducted with more growth traits taken into consideration

Estimation de la production zooplanctonique sur le plateau continental ivoirien

An attempt was made to calculate zooplankton production from weights and settled volumes and from the life cycle of some copepods. Biomass data were recorded during several years from 24 monthly cruises and from a coastal station sampled biweekly. Dry weight data were directly measured or were calculated from the settled volumes using a linear regression. They range, on an average, from 0.965 to 5.56 g m-2 day-1 from the shore line to the edge of the continental shelf. The mean life-span of the cohorts of 12 species of copepods is about 20 days. It is assumed that only 1 spawn occurs per generation-time and that the standing stock is turned-over during the life span of a cohort. The production ranges from 48.2 to 278 mg dry weight m-2 day-1 or 17.9 to 103 mg C m-2 day-1, according to the depth of the studied areas. One third of carnivorous production occurs among the copepods. So, it is assumed that the herbivorous and omnivorous production is about 2/3 of the total zooplanktonic production. This would be a more accurate estimate of secondary production. The standing stock of zooplankton and fishes are in the same order of magnitude; the ratio zooplanktonic production/total fishery is 0.8%.

Efeito do docetaxel e da ciclofosfamida nas alterações da matriz óssea

A Organização Mundial de Saúde (OMS) estima para 2030, 27 milhões de casos incidentes de câncer. No Brasil, segundo o Instituto Nacional do Câncer, foram estimados 518.510 casos novos de câncer para os anos de 2012 e 2013. Dessa estimativa, 52.680 correspondem ao câncer de mama (CM), com um risco estimado de 52 novos casos a cada 100.000 mulheres. O câncer de mama é um dos tipos de câncer mais comuns no mundo todo. Hoje se sabe que o tratamento para o CM pode levar ao surgimento de diferentes efeitos adversos tardios, entre eles a osteoporose. Uma das principais causas de surgimento da osteoporose é a menopausa precoce, que ocorre através da diminuição da concentração de estrogênio sérico. Este trabalho teve como objetivo avaliar os efeitos na matriz óssea induzidos pela quimioterapia, simulando um tratamento para o CM, em ratas Wistar.Ratas Wistar, com aproximadamente 3 meses de idade, foram divididas em: grupo controle e grupo que recebeu quimioterapia com poliquimioterápico docetaxel + ciclofosfamida (TC). A quimioterapia foi administrada em 4 ciclos, com intervalo de 1 semana entre eles. Os ratos foram submetidos à eutanásia 5 meses após o término do tratamento, para que os efeitos tardios pudessem ser avaliados. Vários estudos foram conduzidos: dosagem sorológica de estradiol, ensaios histológicos através de imunohistoquímica, micro-fluorescência de Raios-X, micro-tomografia computadorizada. Além de microscopia eletrônica de transmissão e varredura.Analisando os resultados obtidos em conjunto, sugere-se que a etapa inicial para o desenvolvimento da osteoporose, causada pelo poliquimioterápico TC, seja a diminuição da função ovariana. Este evento leva à diminuição da concentração de estrogênio sérico, o que causa a atrofia uterina. Concomitante a estes fatos, o TC causa redução na concentração de zinco no tecido ósseo. Estes resultados associados causam um desequilíbrio na relação osteoblastos/osteoclastos no osso. A redução do estrogênio leva à diminuição da apoptose de osteoclastos, enquanto que a redução do zinco inibe a função dos osteoblastos. Este desequilíbrio interfere no turnover do osso, de forma a aumentar a reabsorção óssea. Deste modo, o percentual de osso fica reduzido, as trabéculas tornam-se mais finas e espaçadas. O endpoint deste processo é a osteoporose.A administração dos poliquimioterápicos docetaxel e ciclofosfamida em conjunto leva a diminuição da massa óssea, a adelgaçamento das trabéculas e o aumento do espaço entre elas. Estas observações sugerem que realmente as ratas tratadas com TC apresentam osteoporose. Concluímos que tanto o estrogênio quanto o zinco têm papel fundamental no desenvolvimento desta patologia após quimioterapia com TC.