Physical Sciences and Mathematics Commons^™

A Simulation-Based Approach For Evaluating Gene Expression Analyses, Carly Ruth Pendleton

Theses and Dissertations

Microarrays enable biologists to measure differences in gene expression in thousands of genes simultaneously. The data produced by microarrays present a statistical challenge, one which has been met both by new modifications of existing methods and by completely new approaches. One of the difficulties with a new approach to microarray analysis is validating the method's power and sensitivity. A simulation study could provide such validation by simulating gene expression data and investigating the method's response to changes in the data; however, due to the complex dependencies and interactions found in gene expression data, such a simulation would be complicated and …

The Power Method Transformation: Its Probability Density Function, Distribution Function, And Its Further Use For Fitting Data, Todd C. Headrick, Rhonda K. Kowalchuk

Todd Christopher Headrick

The power method polynomial transformation is a popular algorithm used for simulating non-normal distributions because of its simplicity and ease of execution. The primary limitations of the power method transformation are that its probability density function (pdf) and cumulative distribution function (cdf) are unknown. In view of this, the power method’s pdf and cdf are derived in general form. More specific properties are also derived for determining if a given transformation will also have an associated pdf in the context of polynomials of order three and five. Numerical examples and parametric plots of power method densities are provided to confirm …

A Comparison Of Individual-Based And Matrix Projection Models To Applied To Fish Population And Community Dynamics, Shaye Ellen Sable

LSU Doctoral Dissertations

Matrix projection models and individual-based models (IBM) are commonly used for the analysis and management of fish populations. Matrix models break down the population into age or stage classes, while IBMs track individuals. I perform a series of quantitative comparisons between the predictions of the two modeling approaches using the IBM as the standard of comparison to demonstrate when individual variation, species interactions, and spatial heterogeneity adversely affect matrix model performance. I first evaluate the matrix approach for predicting yellow perch population responses when perch are involved in size-specific predator-prey interactions with walleye. I created density-dependent and stochastic age-structured and …

Small-Scale Turbulence In A Closed-Field-Line Geometry, Paolo Ricci, B. N. Rogers, W. Dorland

Dartmouth Scholarship

Plasma turbulence due to small-scale entropy modes is studied with gyrokinetic simulations in a simple closed-field-line geometry, the Z pinch, in low-β parameter regimes that are stable to ideal interchange modes. We find an enormous variation in the nonlinear dynamics and particle transport as a function of two main parameters, the density gradient and the plasma collisionality. This variation is explained in part by the damping and stability properties of spontaneously formed zonal flows in the system. As in toroidal systems, the zonal flows can lead to a strong nonlinear suppression of transport below a critical gradient that is determined …

Robust Control Techniques Enabling Duty Cycle Experiments Utilizing A 6-Dof Crewstation Motion Base, A Full Scale Combat Hybrid Electric Power System, And Long Distance Internet Communications, Marc Compere, Jarrett Goodell, Miguel Simon, Wilford Smith, Mark Brudnak

Publications

The RemoteLink effort supports the U.S. Army's objective for developing and fielding next generation hybrid-electric combat vehicles. It is a distributed soldierin- the-Ioop and hardware-in-the-Ioop environment with a 6-DOF motion base for operator realism, a full-scale combat hybrid electric power system, and an operational context provided by OneSAF. The driver/gunner crewstations rest on one of two 6-DOF motion bases at the U.S. Army TARDEC Simulation Laboratory (TSL). The hybrid power system is located 2,450 miles away at the TARDEC Power and Energy System Integration Laboratory (P&E SIL). The primary technical challenge in the RemoteLink is to operate both laboratories together …

Tabu Search For Optimization Of Military Supply Distribution, Ben Weber, Brett Bojduj, Jens G. Pohl

Collaborative Agent Design (CAD) Research Center

The dynamic and non-hierarchical nature of the military domain presents a challenge for traditional supply chain optimization. Flow networks and simulation techniques have been applied to the military distribution problem, but are unable to provide time-definite delivery to customers. Recently, optimization approaches have been independently applied towards strategic and operational levels of planning. However, decomposing military distribution into separate problems forces optimization techniques to utilize imprecise data. The size of the military distribution problem has prevented optimization techniques from providing end-to-end planning capabilities. This paper presents a Tabu Search algorithm for simultaneously solving strategic and operational levels of planning. The …

Choosing Smoothing Parameters For Exponential Smoothing: Minimizing Sums Of Squared Versus Sums Of Absolute Errors, Terry E. Dielman

Journal of Modern Applied Statistical Methods

When choosing smoothing parameters in exponential smoothing, the choice can be made by either minimizing the sum of squared one-step-ahead forecast errors or minimizing the sum of the absolute onestep- ahead forecast errors. In this article, the resulting forecast accuracy is used to compare these two options.

Combining Information From Two Surveys To Estimate County-Level Prevalence Rates Of Cancer Risk Factors And Screening, Trivellore E. Raghuanthan, Dawei Xie, Nathaniel Schenker, Van Parsons, William W. Davis, Kevin W. Dodd, Eric J. Feuer

The University of Michigan Department of Biostatistics Working Paper Series

Cancer surveillance requires estimates of the prevalence of cancer risk factors and screening for small areas such as counties. Two popular data sources are the Behavioral Risk Factor Surveillance System (BRFSS), a telephone survey conducted by state agencies, and the National Health Interview Survey (NHIS), an area probability sample survey conducted through face-to-face interviews. Both data sources have advantages and disadvantages. The BRFSS is a larger survey, and almost every county is included in the survey; but it has lower response rates as is typical with telephone surveys, and it does not include subjects who live in households with no …

Task Scheduling And Simulation, Martin Lee Mayne

Undergraduate Honors Capstone Projects

Scheduling is a problem that is not only common computer science, but which also comes up in a variety of real world situations. Whether multi-threading computer processes, scheduling airport traffic, optimizing assembly line production and manufacturing, or ensuring that enough employees are on the floor at a given time, scheduling is important for increasing efficiency, reducing costs, optimizing production, and meeting deadlines. Scheduling has been used throughout history and has increased in efficacy through the years. Modem computerized scheduling techniques are typically much better than human calculations and often produce surprising insights and results which would have been otherwise passed …

Modeling And Simulation Of Value -At -Risk In The Financial Market Area, Xiangyin Zheng

Doctoral Dissertations

Value-at-Risk (VaR) is a statistical approach to measure market risk. It is widely used by banks, securities firms, commodity and energy merchants, and other trading organizations. The main focus of this research is measuring and analyzing market risk by modeling and simulation of Value-at-Risk for portfolios in the financial market area. The objectives are (1) predicting possible future loss for a financial portfolio from VaR measurement, and (2) identifying how the distributions of the risk factors affect the distribution of the portfolio. Results from (1) and (2) provide valuable information for portfolio optimization and risk management.

The model systems chosen …

A Selective Approach To Bandwidth Overbooking, Feng Huang

Theses and Dissertations

Overbooking is a technique used by network providers to increase bandwidth utilization. If the overbooking factor is chosen appropriately, additional virtual circuits can be admitted without degrading quality of service for existing customers. Most existing implementations use a single factor to accept a linear fraction of traffic requests. High values of this factor may cause the degradation of quality of service whereas low overbooking factors will result in underutilization of bandwidth. Network providers often select overbooking factors based only on aggregate average virtual circuit utilization. This paper proposes a selective overbooking scheme based on trunk size and usage profile. Experiments …

Asynchronous Random Boolean Network Model With Variable Number Of Parents Based On Elementary Cellular Automata Rule 126, Mihaela Teodora Matache

Mathematics Faculty Publications

A Boolean network with N nodes, each node’s state at time t being determined by a certain number of parent nodes, which can vary from one node to another is considered. This is a generalization of previous results obtained for a constant number of parent nodes, by Matache and Heidel in Asynchronous random Boolean network model based on elementary cellular automata rule 126, Phys. Rev. E 71, 026232, 2005. The nodes, with randomly assigned neighborhoods, are updated based on various asynchronous schemes. The Boolean rule is a generalization of rule 126 of elementary cellular automata, and is assumed to be …

Simulating A Pipelined Reconfigurable Mesh On A Linear Array With A Reconfigurable Pipelined Bus System, Mathura Gopalan

Computer Science Theses

Due to the unidirectional nature of propagation and predictable delays, optically pipelined buses have been gaining more attention. There have been many models proposed over time that use reconfigurable optically pipelined buses. The reconfigurable nature of the models makes them capable of changing their component’s functionalities and structure that connects the components at every step of computation. There are both one dimensional as well as k –dimensional models that have been proposed in the literature. Though equivalence between various one dimensional models and equivalence between different two dimensional models had been established, so far there has not been any attempt …

A Labview-Based Virtual Instrument For Engineering Education: A Numerical Fourier Transform Tool, Levent Sevgi̇, Çağatay Uluişik

Turkish Journal of Electrical Engineering and Computer Sciences

Engineering is based on practice. The minima of this practice should be given during the university education. This has become more and more comprehensive and expensive parallel to high-technology devices developed and presented to societies. Computers, microprocessor-based devices, programmable systems on Chip (PSoC), etc., make engineering education not only very complex but interdisciplinary as well. Building undergraduate labs has become more and more expensive if only physical experimentation and hands-on training are targeted. On the other hand, simple, comparatively much cheaper software may turn a regular personal computer (PC) into a virtual lab. The key question therefore is, to establish …

A Comparison For Longitudinal Data Missing Due To Truncation, Rong Liu

Theses and Dissertations

Many longitudinal clinical studies suffer from patient dropout. Often the dropout is nonignorable and the missing mechanism needs to be incorporated in the analysis. The methods handling missing data make various assumptions about the missing mechanism, and their utility in practice depends on whether these assumptions apply in a specific application. Ramakrishnan and Wang (2005) proposed a method (MDT) to handle nonignorable missing data, where missing is due to the observations exceeding an unobserved threshold. Assuming that the observations arise from a truncated normal distribution, they suggested an EM algorithm to simplify the estimation.In this dissertation the EM algorithm is …

Scheduling Policies For Disks And Disk Arrays, Chang Liu

Dissertations

Recent rapid advances of magnetic recording technology have enabled substantial increases in disk capacity. There has been less than 10% improvement annually in the random access time to small data blocks on the disk. Such accesses are very common in OLTP applications, which tend to have stringent response time requirements. Scheduling of disk requests is intended to improve their response time, reduce disk service time, and increase disk access bandwidth with respect to the default FCFS scheduling policy.

Shortest Access Time First policy has been shown to outperform other classical disk scheduling policies in numerous studies. Before verifying this conclusion, …

Hyperspectral Simulation And Recovery Of Submerged Targets In Turbid Waters, Charles R. Bostater

Ocean Engineering and Marine Sciences Faculty Publications

Modeled hyperspectral reflectance signatures just above the water surface are obtained from radiative transfer models to create synthetic images of targets below the water surface. Images are displayed as 24 bit RGB images of the water surface using selected channels. Example model outputs are presented in this paper for a hyperspectral Monte Carlo and a hyperspectral layered analytical iterative model of radiative transport within turbid shallow water types. Images at the selected wavelengths or channels centered at 490, 530 and 680 nm suggests the two models provide quite similar results when displayed as RGB images. The techniques are demonstrated to …

Jmasm16: Pseudo-Random Number Generation In R For Some Univariate Distributions, Hakan Demirtas

Journal of Modern Applied Statistical Methods

An increasing number of practitioners and applied researchers started using the R programming system in recent years for their computing and data analysis needs. As far as pseudo-random number generation is concerned, the built-in generator in R does not contain some important univariate distributions. In this article, complementary R routines that could potentially be useful for simulation and computation purposes are provided.

Simulation Study Of Estimation And Inference In Factor Analysis: Normal And Non-Normal Noise Distributions, Ping Zhang

All Graduate Plan B and other Reports, Spring 1920 to Spring 2023

Objective: To study the estimation and inference m factor analyses when the data have normal or non-normal noise distributions.

Methods: Population data were created in package R with a specified number of factors, factor structure and observable variables with known loadings. Then, repeated simple random samples (SRS's) were taken from the population, independently. The maximum likelihood method with varimax rotation was used to perform factor analysis and inference on each sampled dataset. Factor loadings were estimated to determine if the estimation of the loadings was (approximately) unbiased and/or efficient for each specified population and chi-square x2-statistics were obtained to test …

Selectron Mass Reconstruction And The Resolution Of The Linear Collider Detector, Sharon J. Gerbode, Heath Holguin, Troy Lau, Paul Mooser, Adam Pearlstein, Joe Rose, Bruce Schumm

All HMC Faculty Publications and Research

We have used ISAJET and the JAS LCD fast simulation to explore the precision of Snowmass Point SPS1a selectron mass reconstruction for the Silicon Detector concept. Simulating collisions at E_cm = 1 TeV, we have found that most of the information constraining the selectron mass is carried in the forward (|cos(theta)| > 0.8) region. We have also found that, for a beam energy spread of 1% (conventional RF design), detector resolution limitations compromise the selectron mass reconstruction only in the forward region. However, for a beam energy spread of less than 0.2% (superconducting RF design), the detector resolution compromises the selectron …

Robust Control Techniques For State Tracking In The Presence Of Variable Time Delays, Jarrett Goodell, Marc Compere, Miguel Simon, Wilford Smith, Ronnie Wright, Mark Brudnak

Publications

In this paper, a distributed driver-in-the-Ioop and hardware-in-the-Ioop simulator is described with a driver on a motion simulator at the U.S. Army TARDEC Ground Vehicle Simulation Laboratory (GVSL). Realistic power system response is achieved by linking the driver in the GVSL with a full-sized hybrid electric power system located 2,450 miles away at the TARDEC Power and Energy Systems Integration Laboratory (P&E SIL), which is developed and maintained by Science Applications International Corporation (SAIC). The goal is to close the loop between the GVSL and P&E SIL over the Internet to provide a realistic driving experience in addition to realistic …

Simulation Study For Wireless Sensor Networks And Load Sharing Routing Protocol To Increase Network Life And Connectivity, Ankur Suri

LSU Master's Theses

LSU SensorSimulator is a framework for simulating wireless sensor networks. It is a customizable and extendible simulator, which allows testing and analyzing software for wireless sensor networks. The users can subclass the framework classes and customize the behavior of various network layers. This subclassing gives a way to the developers an opportunity to analyze and investigate, phenomenological, networking, robustness and scaling issues, to explore arbitrary algorithms for distributed sensors, independent of hardware constraint. The results are compared against the simulation results for ns-2 for routing protocols Directed Diffusion and GEAR. Through the comparison of results for scalability, performance and memory …

Monte Carlo Simulation Of Hole Transport And Terahertz Amplification In Multilayer Delta Doped Semiconductor Structures, Maxim Dolguikh

Electronic Theses and Dissertations

Monte Carlo method for the simulation of hole dynamics in degenerate valence subbands of cubic semiconductors is developed. All possible intra- and inter-subband scattering rates are theoretically calculated for Ge, Si, and GaAs. A far-infrared laser concept based on intersubband transitions of holes in p-type periodically delta-doped semiconductor films is studied using numerical Monte-Carlo simulation of hot hole dynamics. The considered device consists of monocrystalline pure Ge layers periodically interleaved with delta-doped layers and operates with vertical or in-plane hole transport in the presence of a perpendicular in-plane magnetic field. Inversion population on intersubband transitions arises due to light hole …

Sensorsimulator: Simulation Framework For Sensor Networks, Cariappa D. Mallanda

LSU Master's Theses

Wireless sensor networks have the potential to become significant subsystems of engineering applications. Before relegating important and safety-critical tasks to such subsystems, it is necessary to understand the dynamic behavior of these subsystems in simulation environments. There is an urgent need to develop a simulation platform that is useful to explore both the networking issues and the distributed computing aspects of wireless sensor networks. Current approaches to simulating wireless sensor networks largely focus on the networking issues. These approaches use well-known network simulation tools that are often difficult to extend to explore distributed computing issues. Discrete-event simulation is a trusted …

Adaptation And Sustainability In A Small Arctic Community: Results Of An Agent-Based Simulation Model, Matthew Berman, Craig Nicolson, Gary Kofinas, Joe Tetlichi, Stephanie Martin

Craig Nicolson

Climate warming and resource development could alter key Arctic ecosystem functions that support fish and wildlife resources harvested by local indigenous communities. A different set of global forces—government policies and tourism markets—increasingly directs local cash economies that communities use to support subsistence activities. Agent-based computational models (ABMs) contribute to an integrated assessment of community sustainability by simulating how people interact with each other and adapt to changing economic and environmental conditions. Relying on research and local knowledge to provide rules and parameters for individual and collective decision making, our ABM generates hypothetical social histories as adaptations to scenario-driven changes in …

Pseudo-Random Number Generation In R For Commonly Used Multivariate Distributions, Hakan Demirtas

Journal of Modern Applied Statistical Methods

An increasing number of practitioners and applied statisticians have started using the R programming system in recent years for their computing and data analysis needs. As far as pseudo-random number generation is concerned, the built-in generator in R does not contain multivariate distributions. In this article, R routines for widely used multivariate distributions are presented.

Studies Of Disk Arrays Tolerating Two Disk Failures And A Proposal For A Heterogeneous Disk Array, Chunqi Han

Dissertations

There has been an explosion in the amount of generated data in the past decade. Online access to these data is made possible by large disk arrays, especially in the RAID (Redundant Array of Independent Disks) paradigm. According to the RAID level a disk array can tolerate one or more disk failures, so that the storage subsystem can continue operating with disk failure(s). RAID 5 is a single disk failure tolerant array which dedicates the capacity of one disk to parity information. The content on the failed disk can be reconstructed on demand and written onto a spare disk. However, …

A Comparison Of Geostatistical And Spatial Autoregressive Approaches For Dealing With Spatially Correlated Residuals In Regression Analysis For Precision Agriculture Applications, Ignacio Colonna, Matías Ruffo, Germán Bollero, Don Bullock

Conference on Applied Statistics in Agriculture

Regressions such as Grain yield=f(soil,landscape) are frequently reported in precision agriculture research, and are typically computed using conventional OLS methods, implicitly ignoring spatial correlation of the residuals. This oversight can have a marked effect on the final conclusions derived from these regressions. A further issue is, which approach should be used to account for this problem? We investigated this question using a 2 year data set that includes sitespecific soil and topographic information and soybean yields and compare regression results from direct covariance representation and spatial autoregressive approaches. Our results show that the coefficients from both spatial approaches are in …

Synthetic Image Generation Of Shallow Water Using An Iterative Layered Radiative Transfer Model With Realistic Water Surface Waves, Charles R. Bostater Jr., Lisa Huddleston, Luce Bassetti

Ocean Engineering and Marine Sciences Faculty Publications

Modeled hyperspectral reflectance signatures just above the water surface are obtained from an analytical-based, iterative radiative transport model applicable to shallow water types. Light transport within the water body is simulated using a fast, accurate radiative transfer model that calculates the light distribution in any layered media. A realistic water surface is synthesized using empirically-based spectral models of the ocean surface to generate water surface waves. Images are displayed as 24 bit RGB images of the water surface using selected channels from a synthetic hyperspectral image cube. The selected channels are centered at 490, 530 and 676 nm. Hyperspectral image …

Data Assimilation Of Avhrr And Modis Data For Land Base Initialization And Boundary Conditions In The Utc-M Atmospheric Boundary Layer Sea-Breeze Model Of Space Coast Florida, Charles R. Bostater Jr., Jerome A. King, Lisa H. Huddleston, Luce Bassetti

Ocean Engineering and Marine Sciences Faculty Publications

The purpose of this paper is to present results of simulations of the Florida Tech UTC-M sea-breeze model22 with the addition of a simplified atmospheric downwelling radiation subroutine1,4 combined and a thermal inertia subroutine17,19,20 into the atmospheric planetary boundary layer model, in order to calculate time dependant heat flux boundary conditions at the air-land boundary that are derived from satellite data from AVHRR and MODIS sensors. The improved UTC-M planetary boundary layer model with this thermal sub-model subroutine is used to demonstrate the use of thermal inertia to help estimate heat fluxes at the land-air interface which in turn influences …