All issues

Fluorescent imaging data are currently widely used in neuroscience and other fields. Genetically encoded sensors, based on fluorescent proteins, provide a wide inventory enabling scientiests to image virtually any process in a living cell and extracellular environment. However, especially due to the need for fast scanning, miniaturization, etc, the imaging data can be severly corrupred with multiplicative heteroscedactic noise, reflecting stochastic nature of photon emission and photomultiplier detectors. Deep learning architectures demonstrate outstanding performance in image segmentation and denoising, however they can require large clean datasets for training, and the actual data transformation is not evident from the network architecture and weight composition. On the other hand, some classical data transforms can provide for similar performance in combination with more clear insight in why and how it works. Here we propose an algorithm for denoising fluorescent dynamical imaging data, which is based on multilinear higher-order singular value decomposition (HOSVD) with optional truncation in rank along each axis and thresholding of the tensor of decomposition coefficients. In parallel, we propose a convenient paradigm for validation of the algorithm performance, based on simulated flurescent data, resulting from biophysical modeling of calcium dynamics in spatially resolved realistic 3D astrocyte templates. This paradigm is convenient in that it allows to vary noise level and its resemblance of the Gaussian noise and that it provides ground truth fluorescent signal that can be used to validate denoising algorithms. The proposed denoising method employs truncated HOSVD twice: first, narrow 3D patches, spanning the whole recording, are processed (local 3D-HOSVD stage), second, 4D groups of 3D patches are collaboratively processed (non-local, 4D-HOSVD stage). The effect of the first pass is twofold: first, a significant part of noise is removed at this stage, second, noise distribution is transformed to be more Gaussian-like due to linear combination of multiple samples in the singular vectors. The effect of the second stage is to further improve SNR. We perform parameter tuning of the second stage to find optimal parameter combination for denoising.

The given work is devoted to the comparison of two tests for homogeneity: chi-square test based on contingency tables of 2 × 2 and test for homogeneity based on asymptotic distributions of the summarized square error of a distribution function estimators in the model of ”dose–effect” dependence. The evaluation of test power is performed by means of computer simulation. In order to design efficiency functions the method of kernel regression estimator based on Nadaray–Watson estimator is used.

In this paper we consider one of the core subsystems of the retail payment system named “Developer”. The Queuing System for modeling this subsystem was developed and information about it is provided. The task for the assignment problem was set up and solved (the modification of the Hungarian algorithm was used). Information about Agent Based Model for subsystem “Developer” and the results of the simulation experiments are given.

The process of heat conduction, accompanied by the first order phase transitions is discussed in this article. Using cellular automates simulation was investigated class of problems that have broad application in practice. In this paper we calculate the temperature distribution in the depth of the soil at different times for a problem of freezing of moist soil. Another task — zone growing — has been modeled by cellular automates too. The coincidence of real and modeling parameters of the system confirms the feasibility of using the selected method of modeling of physical processes.

Verification results of supersonic turbulent jets computational characteristics are presented. Numerical simulation of axisymmetric nozzle operating is realized using FlowVision CFD. Open test cases for CFD are used. The test cases include Seiner tests with exit Mach number of 2.0 both fully-expanded and under-expanded $(P/P_0 = 1.47)$. Fully-expanded nozzle investigated with wide range of flow temperature (300…3000 K). The considered studies include simulation downstream from the nozzle exit diameter. Next numerical investigation is presented at an exit Mach number of 2.02 and a free-stream Mach number of 2.2. Geometric model of convergent- divergent nozzle rebuilt from original Putnam experiment. This study is set with nozzle pressure ratio of 8.12 and total temperature of 317 K.

The paper provides a comparison of obtained FlowVision results with experimental data and another current CFD studies. A comparison of the calculated characteristics and experimental data indicates a good agreement. The best coincidence with Seiner's experimental velocity distribution (about 7 % at far field for the first case) obtained using two-equation $k–\varepsilon$ standard turbulence model with Wilcox compressibility correction. Predicted Mach number distribution at $Y/D = 1$ for Putnam nozzle presents accuracy of 3 %.

General guidelines for simulation of supersonic turbulent jets in the FlowVision software are formulated in the given paper. Grid convergence determined the optimal cell rate. In order to calculate the design regime, it is recommended to build a grid, containing not less than 40 cells from the axis of symmetry to the nozzle wall. In order to calculate an off-design regime, it is necessary to resolve the shock waves. For this purpose, not less than 80 cells is required in the radial direction. Investigation of the influence of turbulence model on the flow characteristics has shown that the version of the SST $k–\omega$ turbulence model implemented in the FlowVision software essentially underpredicts the axial velocity. The standard $k–\varepsilon$ model without compressibility correction also underpredicts the axial velocity. These calculations agree well with calculations in other CFD codes using the standard $k–\varepsilon$ model. The in-home $k–\varepsilon$ turbulence model KEFV with compressibility correction a little bit overpredicts the axial velocity. Since, the best results are obtained using the standard $k–\varepsilon$ model combined with the Wilcox compressibility correction, this model is recommended for the problems discussed.

The developed methodology can be regarded as a basis for numerical investigations of more complex nozzle flows.

Comparative analysis of two numerical methods for simulation of unsteady natural convection and thermal surface radiation within a differentially heated cubical cavity has been carried out. The considered domain of interest had two isothermal opposite vertical faces, while other walls are adiabatic. The walls surfaces were diffuse and gray, namely, their directional spectral emissivity and absorptance do not depend on direction or wavelength but can depend on surface temperature. For the reflected radiation we had two approaches such as: 1) the reflected radiation is diffuse, namely, an intensity of the reflected radiation in any point of the surface is uniform for all directions; 2) the reflected radiation is uniform for each surface of the considered enclosure. Mathematical models formulated both in primitive variables “velocity–pressure” and in transformed variables “vector potential functions – vorticity vector” have been performed numerically using finite volume method and finite difference methods, respectively. It should be noted that radiative heat transfer has been analyzed using the net-radiation method in Poljak approach.

Using primitive variables and finite volume method for the considered boundary-value problem we applied power-law for an approximation of convective terms and central differences for an approximation of diffusive terms. The difference motion and energy equations have been solved using iterative method of alternating directions. Definition of the pressure field associated with velocity field has been performed using SIMPLE procedure.

Using transformed variables and finite difference method for the considered boundary-value problem we applied monotonic Samarsky scheme for convective terms and central differences for diffusive terms. Parabolic equations have been solved using locally one-dimensional Samarsky scheme. Discretization of elliptic equations for vector potential functions has been conducted using symmetric approximation of the second-order derivatives. Obtained difference equation has been solved by successive over-relaxation method. Optimal value of the relaxation parameter has been found on the basis of computational experiments.

As a result we have found the similar distributions of velocity and temperature in the case of these two approaches for different values of Rayleigh number, that illustrates an operability of the used techniques. The efficiency of transformed variables with finite difference method for unsteady problems has been shown.

Comets and asteroids are recognized by the scientists and the governments of all countries in the world to be one of the most significant threats to the development and even the existence of our civilization. Preventing this threat includes studying the motion of large meteors through the atmosphere that is accompanied by various physical and chemical phenomena. Of particular interest to such studies are the meteors whose trajectories have been recorded and whose fragments have been found on Earth. Here, we study one of such cases. We develop a model for the motion and destruction of natural bodies in the Earth’s atmosphere, focusing on the Benešov bolid (EN070591), a bright meteor registered in 1991 in the Czech Republic by the European Observation System. Unique data, that includes the radiation spectra, is available for this bolid. We simulate the aeroballistics of the Benešov meteoroid and of its fragments, taking into account destruction due to thermal and mechanical processes. We compute the velocity of the meteoroid and its mass ablation using the equations of the classical theory of meteor motion, taking into account the variability of the mass ablation along the trajectory. The fragmentation of the meteoroid is considered using the model of sequential splitting and the statistical stress theory, that takes into account the dependency of the mechanical strength on the length scale. We compute air flows around a system of bodies (shards of the meteoroid) in the regime where mutual interplay between them is essential. To that end, we develop a method of simulating air flows based on a set of grids that allows us to consider fragments of various shapes, sizes, and masses, as well as arbitrary positions of the fragments relative to each other. Due to inaccuracies in the early simulations of the motion of this bolid, its fragments could not be located for about 23 years. Later and more accurate simulations have allowed researchers to locate four of its fragments rather far from the location expected earlier. Our simulations of the motion and destruction of the Benešov bolid show that its interaction with the atmosphere is affected by multiple factors, such as the mass and the mechanical strength of the bolid, the parameters of its motion, the mechanisms of destruction, and the interplay between its fragments.

Reduction of the fire hazard of polymeric materials is one of the important scientific and technical problems. Since complexity of experimental procedures associated with flame spread, establishing reacting flows theoretical basics turned out to be crucial field of modern fundamental science. In order to determine parameters of flame spread over solid combustible materials numerical modelling methods have to be improved. Large amount of physical and chemical processes taking place needed to be resolved not just separately one by one but in connection with each other in gas and solid phases.

Upward flame spread over vertical solid combustible material is followed by unsteady eddy structures of gas flow in the vicinity of flame zone caused by thermal instability and natural convection forces accelerating hot combustion products. At every moment different amount of heat energy is transferred from hot gas-phase flame to solid material because of eddy flow structures. Therefore, satisfactory heat flux and eddy flow modelling are important to estimate flame spread rate.

In the current study we evaluated parameters of numerical method for flame spread over solid combustible material problem taking into account coupled nature of complex interaction between gas phase, solid material and eddy flow resulted from natural convection. We studied aspects of different approximation schemes used in differential equations integration process over space and time, of fields relaxation during iterations procedure carried out inside time step, of different time step values.

Mathematical model formulated allows to simulate flame spread over solid combustible material. Fluid dynamics is modeled by Navier – Stokes system of equations, eddy flow is described by combined turbulent model RANS–LES (DDES), turbulent combustion is resolved by modified turbulent combustion model Eddy Break-Up taking into account kinetic effects, radiation transfer is modeled by spherical harmonics method of first order approximation (P1). The equations presented are solved in OpenFOAM software.

This paper is devoted to the application of the method of numerical solution of the Boltzmann equation for the solution of the problem of modeling the behavior of radionuclides in the cavity of the interelectric gap of a multielement electrogenerating channel. The analysis of gas-kinetic processes of thermionic converters is important for proving the design of the power-generating channel. The paper reviews two constructive schemes of the channel: with one- and two-way withdrawal of gaseous fission products into a vacuum-cesium system. The analysis uses a two-dimensional transport equation of the second-order accuracy for the solution of the left-hand side and the projection method for solving the right-hand side — the collision integral. In the course of the work, a software package was implemented that makes it possible to calculate on the cluster architecture by using the algorithm of parallelizing the left-hand side of the equation; the paper contains the results of the analysis of the dependence of the calculation efficiency on the number of parallel nodes. The paper contains calculations of data on the distribution of pressures of gaseous fission products in the gap cavity, calculations use various sets of initial pressures and flows; the dependency of the radionuclide pressure in the collector region was determined as a function of cesium pressures at the ends of the gap. The tests in the loop channel of a nuclear reactor confirm the obtained results.

The study of complex processes in various spheres of human activity is traditionally based on the use of mathematical models. In modern conditions, the development and application of such models is greatly simplified by the presence of high-speed computer equipment and specialized tools that allow, in fact, designing models from pre-prepared modules. Despite this, the known problems associated with ensuring the adequacy of the model, the reliability of the original data, the implementation in practice of the simulation results, the excessively large dimension of the original data, the joint application of sufficiency heterogeneous mathematical models in terms of complexity and integration of the simulated processes are becoming increasingly important. The more critical may be the external constraints imposed on the value of the optimized functional, and often unattainable within the framework of the constructed model. It is logical to assume that in order to fulfill these restrictions, a purposeful transformation of the original model is necessary, that is, the transition to a mathematical model with a deliberately improved solution. The new model will obviously have a different internal structure (a set of parameters and their interrelations), as well as other formats (areas of definition) of the source data. The possibilities of purposeful change of the initial model investigated by the authors are based on the realization of the idea of strategic reflection. The most difficult in mathematical terms practical implementation of the author's idea is the use of simulation models, for which the algorithms for finding optimal solutions have known limitations, and the study of sensitivity in most cases is very difficult. On the example of consideration of rather standard discrete- event simulation model the article presents typical methodological techniques that allow ranking variable parameters by sensitivity and, in the future, to expand the scope of definition of variable parameter to which the simulation model is most sensitive. In the transition to the “improved” model, it is also possible to simultaneously exclude parameters from it, the influence of which on the optimized functional is insignificant, and vice versa — the introduction of new parameters corresponding to real processes into the model.