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Introduction To Computational Modeling Using C And Open Source Tools

Author: Jose M. Garrido
Publisher: CRC Press
ISBN: 1482216787
Size: 49.15 MB
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Introduction to Computational Modeling Using C and Open-Source Tools presents the fundamental principles of computational models from a computer science perspective. It explains how to implement these models using the C programming language. The software tools used in the book include the Gnu Scientific Library (GSL), which is a free software library of C functions, and the versatile, open-source GnuPlot for visualizing the data. All source files, shell scripts, and additional notes are located at science.kennesaw.edu/~jgarrido/comp_models The book first presents an overview of problem solving and the introductory concepts, principles, and development of computational models before covering the programming principles of the C programming language. The author then applies programming principles and basic numerical techniques, such as polynomial evaluation, regression, and other numerical methods, to implement computational models. He also discusses more advanced concepts needed for modeling dynamical systems and explains how to generate numerical solutions. The book concludes with the modeling of linear optimization problems. Emphasizing analytical skill development and problem solving, this book helps you understand how to reason about and conceptualize the problems, generate mathematical formulations, and computationally visualize and solve the problems. It provides you with the foundation to understand more advanced scientific computing, including parallel computing using MPI, grid computing, and other techniques in high-performance computing.

Introduction To Computational Models With Python

Author: Jose M. Garrido
Publisher: CRC Press
ISBN: 1498712045
Size: 40.39 MB
Format: PDF, Docs
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Introduction to Computational Models with Python explains how to implement computational models using the flexible and easy-to-use Python programming language. The book uses the Python programming language interpreter and several packages from the huge Python Library that improve the performance of numerical computing, such as the Numpy and Scipy modules. The Python source code and data files are available on the author’s website. The book’s five sections present: An overview of problem solving and simple Python programs, introducing the basic models and techniques for designing and implementing problem solutions, independent of software and hardware tools Programming principles with the Python programming language, covering basic programming concepts, data definitions, programming structures with flowcharts and pseudo-code, solving problems, and algorithms Python lists, arrays, basic data structures, object orientation, linked lists, recursion, and running programs under Linux Implementation of computational models with Python using Numpy, with examples and case studies The modeling of linear optimization problems, from problem formulation to implementation of computational models This book introduces the principles of computational modeling as well as the approaches of multi- and interdisciplinary computing to beginners in the field. It provides the foundation for more advanced studies in scientific computing, including parallel computing using MPI, grid computing, and other methods and techniques used in high-performance computing.

Software Engineering For Science

Author: Jeffrey C. Carver
Publisher: CRC Press
ISBN: 1498743862
Size: 14.86 MB
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Software Engineering for Science provides an in-depth collection of peer-reviewed chapters that describe experiences with applying software engineering practices to the development of scientific software. It provides a better understanding of how software engineering is and should be practiced, and which software engineering practices are effective for scientific software. The book starts with a detailed overview of the Scientific Software Lifecycle, and a general overview of the scientific software development process. It highlights key issues commonly arising during scientific software development, as well as solutions to these problems. The second part of the book provides examples of the use of testing in scientific software development, including key issues and challenges. The chapters then describe solutions and case studies aimed at applying testing to scientific software development efforts. The final part of the book provides examples of applying software engineering techniques to scientific software, including not only computational modeling, but also software for data management and analysis. The authors describe their experiences and lessons learned from developing complex scientific software in different domains. About the Editors Jeffrey Carver is an Associate Professor in the Department of Computer Science at the University of Alabama. He is one of the primary organizers of the workshop series on Software Engineering for Science (http://www.SE4Science.org/workshops). Neil P. Chue Hong is Director of the Software Sustainability Institute at the University of Edinburgh. His research interests include barriers and incentives in research software ecosystems and the role of software as a research object. George K. Thiruvathukal is Professor of Computer Science at Loyola University Chicago and Visiting Faculty at Argonne National Laboratory. His current research is focused on software metrics in open source mathematical and scientific software.

R Programming For Bioinformatics

Author: Robert Gentleman
Publisher: CRC Press
ISBN: 9781420063684
Size: 43.83 MB
Format: PDF, ePub
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Due to its data handling and modeling capabilities as well as its flexibility, R is becoming the most widely used software in bioinformatics. R Programming for Bioinformatics explores the programming skills needed to use this software tool for the solution of bioinformatics and computational biology problems. Drawing on the author’s first-hand experiences as an expert in R, the book begins with coverage on the general properties of the R language, several unique programming aspects of R, and object-oriented programming in R. It presents methods for data input and output as well as database interactions. The author also examines different facets of string handling and manipulations, discusses the interfacing of R with other languages, and describes how to write software packages. He concludes with a discussion on the debugging and profiling of R code. With numerous examples and exercises, this practical guide focuses on developing R programming skills in order to tackle problems encountered in bioinformatics and computational biology.

Introduction To Computational Biology

Author: Michael S. Waterman
Publisher: CRC Press
ISBN: 1351437089
Size: 13.22 MB
Format: PDF, ePub, Mobi
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Biology is in the midst of a era yielding many significant discoveries and promising many more. Unique to this era is the exponential growth in the size of information-packed databases. Inspired by a pressing need to analyze that data, Introduction to Computational Biology explores a new area of expertise that emerged from this fertile field- the combination of biological and information sciences. This introduction describes the mathematical structure of biological data, especially from sequences and chromosomes. After a brief survey of molecular biology, it studies restriction maps of DNA, rough landmark maps of the underlying sequences, and clones and clone maps. It examines problems associated with reading DNA sequences and comparing sequences to finding common patterns. The author then considers that statistics of pattern counts in sequences, RNA secondary structure, and the inference of evolutionary history of related sequences. Introduction to Computational Biology exposes the reader to the fascinating structure of biological data and explains how to treat related combinatorial and statistical problems. Written to describe mathematical formulation and development, this book helps set the stage for even more, truly interdisciplinary work in biology.

Variational Methods In Image Processing

Author: Luminita A. Vese
Publisher: CRC Press
ISBN: 1439849749
Size: 39.36 MB
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Variational Methods in Image Processing presents the principles, techniques, and applications of variational image processing. The text focuses on variational models, their corresponding Euler–Lagrange equations, and numerical implementations for image processing. It balances traditional computational models with more modern techniques that solve the latest challenges introduced by new image acquisition devices. The book addresses the most important problems in image processing along with other related problems and applications. Each chapter presents the problem, discusses its mathematical formulation as a minimization problem, analyzes its mathematical well-posedness, derives the associated Euler–Lagrange equations, describes the numerical approximations and algorithms, explains several numerical results, and includes a list of exercises. MATLAB® codes are available online. Filled with tables, illustrations, and algorithms, this self-contained textbook is primarily for advanced undergraduate and graduate students in applied mathematics, scientific computing, medical imaging, computer vision, computer science, and engineering. It also offers a detailed overview of the relevant variational models for engineers, professionals from academia, and those in the image processing industry.

Introduction To High Performance Computing For Scientists And Engineers

Author: Georg Hager
Publisher: CRC Press
ISBN: 9781439811931
Size: 66.56 MB
Format: PDF, ePub, Mobi
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Written by high performance computing (HPC) experts, Introduction to High Performance Computing for Scientists and Engineers provides a solid introduction to current mainstream computer architecture, dominant parallel programming models, and useful optimization strategies for scientific HPC. From working in a scientific computing center, the authors gained a unique perspective on the requirements and attitudes of users as well as manufacturers of parallel computers. The text first introduces the architecture of modern cache-based microprocessors and discusses their inherent performance limitations, before describing general optimization strategies for serial code on cache-based architectures. It next covers shared- and distributed-memory parallel computer architectures and the most relevant network topologies. After discussing parallel computing on a theoretical level, the authors show how to avoid or ameliorate typical performance problems connected with OpenMP. They then present cache-coherent nonuniform memory access (ccNUMA) optimization techniques, examine distributed-memory parallel programming with message passing interface (MPI), and explain how to write efficient MPI code. The final chapter focuses on hybrid programming with MPI and OpenMP. Users of high performance computers often have no idea what factors limit time to solution and whether it makes sense to think about optimization at all. This book facilitates an intuitive understanding of performance limitations without relying on heavy computer science knowledge. It also prepares readers for studying more advanced literature. Read about the authors’ recent honor: Informatics Europe Curriculum Best Practices Award for Parallelism and Concurrency

Image Processing And Acquisition Using Python

Author: Ravishankar Chityala
Publisher: CRC Press
ISBN: 1498760570
Size: 75.20 MB
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Image Processing and Acquisition using Python provides readers with a sound foundation in both image acquisition and image processing—one of the first books to integrate these topics together. By improving readers’ knowledge of image acquisition techniques and corresponding image processing, the book will help them perform experiments more effectively and cost efficiently as well as analyze and measure more accurately. Long recognized as one of the easiest languages for non-programmers to learn, Python is used in a variety of practical examples. A refresher for more experienced readers, the first part of the book presents an introduction to Python, Python modules, reading and writing images using Python, and an introduction to images. The second part discusses the basics of image processing, including pre/post processing using filters, segmentation, morphological operations, and measurements. The last part describes image acquisition using various modalities, such as x-ray, CT, MRI, light microscopy, and electron microscopy. These modalities encompass most of the common image acquisition methods currently used by researchers in academia and industry.

Computational Actuarial Science With R

Author: Arthur Charpentier
Publisher: CRC Press
ISBN: 1498759823
Size: 67.75 MB
Format: PDF, Kindle
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A Hands-On Approach to Understanding and Using Actuarial Models Computational Actuarial Science with R provides an introduction to the computational aspects of actuarial science. Using simple R code, the book helps you understand the algorithms involved in actuarial computations. It also covers more advanced topics, such as parallel computing and C/C++ embedded codes. After an introduction to the R language, the book is divided into four parts. The first one addresses methodology and statistical modeling issues. The second part discusses the computational facets of life insurance, including life contingencies calculations and prospective life tables. Focusing on finance from an actuarial perspective, the next part presents techniques for modeling stock prices, nonlinear time series, yield curves, interest rates, and portfolio optimization. The last part explains how to use R to deal with computational issues of nonlife insurance. Taking a do-it-yourself approach to understanding algorithms, this book demystifies the computational aspects of actuarial science. It shows that even complex computations can usually be done without too much trouble. Datasets used in the text are available in an R package (CASdatasets).

Petascale Computing

Author: David A. Bader
Publisher: CRC Press
ISBN: 9781584889106
Size: 35.31 MB
Format: PDF, ePub
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Although the highly anticipated petascale computers of the near future will perform at an order of magnitude faster than today’s quickest supercomputer, the scaling up of algorithms and applications for this class of computers remains a tough challenge. From scalable algorithm design for massive concurrency toperformance analyses and scientific visualization, Petascale Computing: Algorithms and Applications captures the state of the art in high-performance computing algorithms and applications. Featuring contributions from the world’s leading experts in computational science, this edited collection explores the use of petascale computers for solving the most difficult scientific and engineering problems of the current century. Covering a wide range of important topics, the book illustrates how petascale computing can be applied to space and Earth science missions, biological systems, weather prediction, climate science, disasters, black holes, and gamma ray bursts. It details the simulation of multiphysics, cosmological evolution, molecular dynamics, and biomolecules. The book also discusses computational aspects that include the Uintah framework, Enzo code, multithreaded algorithms, petaflops, performance analysis tools, multilevel finite element solvers, finite element code development, Charm++, and the Cactus framework. Supplying petascale tools, programming methodologies, and an eight-page color insert, this volume addresses the challenging problems of developing application codes that can take advantage of the architectural features of the new petascale systems in advance of their first deployment.