Luminescence Signal Analysis Using Python

This book compiles and presents a complete package of open-access Python software code for luminescence signal analysis in the areas of radiation dosimetry, luminescence dosimetry, and luminescence dating. Featuring more than 90 detailed worked examples of Python code, fully integrated into the text, 16 chapters summarize the theory and equations behind the subject matter, while presenting the practical Python codes used to analyze experimental data and extract the various parameters that mathematically describe the luminescence signals. Several examples are provided of how researchers can use and modify the available codes for different practical situations. Types of luminescence signals analyzed in the book are thermoluminescence (TL), isothermal luminescence (ITL), optically stimulated luminescence (OSL), infrared stimulated luminescence (IRSL), timeresolved luminescence (TR) and dose response of dosimetric materials. The open-access Python codes are available at GitHub. The book is well suited to the broader scientific audience using the tools of luminescence dosimetry: physicists, geologists, archaeologists, solid-state physicists, medical physicists, and all scientists using luminescence dosimetry in their research. The detailed code provided allows both students and researchers to be trained quickly and efficiently on the practical aspects of their work, while also providing an overview of the theory behind the analytical equations.

This book compiles and presents a complete package of open-access Python software code for luminescence signal analysis in the areas of radiation dosimetry, luminescence dosimetry, and luminescence dating. Featuring more than 90 detailed worked examples of Python code, fully integrated into the text, 16 chapters summarize the theory and equations behind the subject matter, while presenting the practical Python codes used to analyze experimental data and extract the various parameters that mathematically describe the luminescence signals. Several examples are provided of how researchers can use and modify the available codes for different practical situations. Types of luminescence signals analyzed in the book are thermoluminescence (TL), isothermal luminescence (ITL), optically stimulated luminescence (OSL), infrared stimulated luminescence (IRSL), timeresolved luminescence (TR) and dose response of dosimetric materials. The open-access Python codes are available at GitHub. The book is well suited to the broader scientific audience using the tools of luminescence dosimetry: physicists, geologists, archaeologists, solid-state physicists, medical physicists, and all scientists using luminescence dosimetry in their research. The detailed code provided allows both students and researchers to be trained quickly and efficiently on the practical aspects of their work, while also providing an overview of the theory behind the analytical equations.

This advanced undergraduate textbook presents a new approach to teaching mathematical methods for scientists and engineers. It provides a practical, pedagogical introduction to utilizing Python in Mathematical and Computational Methods courses. Both analytical and computational examples are integrated from its start. Each chapter concludes with a set of problems designed to help students hone their skills in mathematical techniques, computer programming, and numerical analysis. The book places less emphasis on mathematical proofs, and more emphasis on how to use computers for both symbolic and numerical calculations. It contains 182 extensively documented coding examples, based on topics that students will encounter in their advanced courses in Mechanics, Electronics, Optics, Electromagnetism, Quantum Mechanics etc. An introductory chapter gives students a crash course in Python programming and the most often used libraries (SymPy, NumPy, SciPy, Matplotlib). This is followed by chapters dedicated to differentiation, integration, vectors and multiple integration techniques. The next group of chapters covers complex numbers, matrices, vector analysis and vector spaces. Extensive chapters cover ordinary and partial differential equations, followed by chapters on nonlinear systems and on the analysis of experimental data using linear and nonlinear regression techniques, Fourier transforms, binomial and Gaussian distributions. The book is accompanied by a dedicated GitHub website, which contains all codes from the book in the form of ready to run Jupyter notebooks. A detailed solutions manual is also available for instructors using the textbook in their courses. Key Features: · A unique teaching approach which merges mathematical methods and the Python programming skills which physicists and engineering students need in their courses. · Uses examples and models from physical and engineering systems, to motivate the mathematics being taught. · Students learn to solve scientific problems in three different ways: traditional pen-and-paper methods, using scientific numerical techniques with NumPy and SciPy, and using Symbolic Python (SymPy). Vasilis Pagonis is Professor of Physics Emeritus at McDaniel College, Maryland, USA. His research area is applications of thermally and optically stimulated luminescence. He taught courses in mathematical physics, classical and quantum mechanics, analog and digital electronics and numerous general science courses. Dr. Pagonis’ resume lists more than 200 peer-reviewed publications in international journals. He is currently associate editor of the journal Radiation Measurements. He is co-author with Christopher Kulp of the undergraduate textbook “Classical Mechanics: a computational approach, with examples in Python and Mathematica” (CRC Press, 2020). He has also co-authored four graduate-level textbooks in the field of luminescence dosimetry, and most recently published the book “Luminescence Signal analysis using Python” (Springer, 2022). Christopher Kulp is the John P. Graham Teaching Professor of Physics at Lycoming College. He has been teaching undergraduate physics at all levels for 20 years. Dr. Kulp’s research focuses on modelling complex systems, time series analysis, and machine learning. He has published 30 peer-reviewed papers in international journals, many of which include student co-authors. He is also co-author of the undergraduate textbook “Classical Mechanics: a computational approach, with examples in Python and Mathematica” (CRC Press, 2020).

​This book covers applications of R to the general discipline of radiation dosimetry and to the specific areas of luminescence dosimetry, luminescence dating, and radiation protection dosimetry. It features more than 90 detailed worked examples of R code fully integrated into the text, with extensive annotations. The book shows how researchers can use available R packages to analyze their experimental data, and how to extract the various parameters describing mathematically the luminescence signals. In each chapter, the theory behind the subject is summarized, and references are given from the literature, so that researchers can look up the details of the theory and the relevant experiments. Several chapters are dedicated to Monte Carlo methods, which are used to simulate the luminescence processes during the irradiation, heating, and optical stimulation of solids, for a wide variety of materials. This book will be useful to those who use the tools of luminescence dosimetry, including physicists, geologists, archaeologists, and for all researchers who use radiation in their research.

Harmonically modulated luminescence combines the advantages of highly sensitive luminescence metrology with an immediate dynamic access to carrier lifetime in semiconductors at a minimum of required a priori information. The present work covers theoretical, conceptual, and experimental advances of the harmonically modulated luminescence technique. Theoretical constraints of dynamic carrier lifetime techniques are rigorously elaborated, including the proof of their differential nature and their characteristics at nonuniform spatial distributions of recombination rate. The pathway toward a unified, reliable, and versatile harmonically modulated carrier lifetime metrology is delineated - covering the entire solar cell production chain from bare ingots to finished solar cells. Accurate access to miscellaneous relevant recombination and transport properties via harmonically modulated luminescence is demonstrated and experimentally validated, embracing injection-dependent carrier lifetimes at extremely low injection conditions, a spatially resolved carrier lifetime calibration of luminescence images, and accurate approaches to both net dopant concentration and minority carrier mobility.

The economic importance of lactic acid bacteria (LAB) for the food industry and their implication in health and disease has rendered them attractive models for research in many laboratories around the world. Over the past three decades, molecular and genetic analysis of LAB species provided important insights into the biology and application of starter and probiotic LAB and in the virulence of LAB pathogens. The knowledge obtained prepared LAB researchers for the forthcoming opportunities provided by the advent of microbial genomics. Today, developments in next-generation sequencing technologies have rocketed LAB genome research and the sequences of several hundreds of strains are available. This flood of information has revolutionized our view of LAB. First of all, a detailed picture has emerged about the evolutionary mechanisms allowing LAB to inhabit the very diverge ecological niches in which they can be found. Adaptation of LAB to nutrient-rich environments has led to degenerative evolution processes that resulted in shortening of chromosomes and simplified metabolic potential. Gene acquisition through horizontal transfer, on the other hand, is also important in shaping LAB gene pools. Horizontally acquired genes have been shown to be essential in technological properties of starters and in probiosis or virulence of commensals. Progress in bioinformatics tools has allowed rapid annotation of LAB genomes and the direct assignment of genetic traits among species/strains through comparative genomics. In this way, the molecular basis of many important traits of LAB has been elucidated, including aspects of sugar fermentation, flavor and odor formation, production of textural substances, stress responses, colonization of and survival in the host, cell-tocell interactions and pathogenicity. Functional genomics and proteomics have been employed in a number of instances to support in silico predictions. Given that the costs of advanced next-generation methodologies like RNA-seq are dropping fast, bottlenecks in the in silico characterization of LAB genomes will be rapidly overcome. Another crucial advancement in LAB research is the application of systems biology approaches, by which the properties and interactions of components or parts of a biological system are investigated to accurately understand or predict LAB behavior. Practically, systems biology involves the mathematical modeling of complex biological systems that can be refined iteratively with wet-lab experiments. High-throughput experimentation generating huge amounts of data on the properties and quantities of many components such as transcripts, enzymes and metabolites has resulted in several systems models of LAB. Novel techniques allow modelling of additional levels of complexity including the function of small RNAs, structural features of RNA molecules and post-translational modifications. In addition, researchers have started to apply systems approaches in the framework of LAB multispecies ecosystems in which each species or strain is considered as a part of the system. Metatransciptomics, metaproteomics and metametabolomics offer the means to combine cellular behavior with population dynamics in microbial consortia.

Thermoluminescence (TL) is a well-established technique widely used in do- metric and dating applications. Although several excellent reference books exist which document both the t- oretical and experimental aspects of TL, there is a general lack of books that deal withspeci?cnumericalandpracticalaspectsofanalyzingTLdata. Manytimesthe practicaldetailsofanalyzingnumericalTLglowcurvesandofapplyingtheoretical models are dif?cult to ?nd in the published literature. The purpose of this book is to provide a practical guide for both established researchers and for new graduate students entering the ?eld of TL and is intended to be used in conjunction with and as a practical supplement of standard textbooks in the ?eld. Chapter1laysthemathematicalgroundworkforsubsequentchaptersbyprese- ingthefundamentalmathematicalexpressionsmostcommonlyusedforanalyzing experimental TL data. Chapter2presentscomprehensiveexamplesofTLdataanalysisforglowcurves following ?rst-, second-, and general-order kinetics. Detailed analysis of num- ical data is presented by using a variety of methods found in the TL literature, with particular emphasis in the practical aspects and pitfalls that researchers may encounter. Special emphasis is placed on the need to use several different me- ods to analyze the same TL data, as well as on the necessity to analyze glow curves obtained under different experimental conditions. Unfortunately, the lit- ature contains many published papers that claim a speci?c kinetic order for a TL peak in a dosimetric material, based only on a peak shape analysis. It is hoped that the detailed examples provided in Chapter 2 will encourage more comprehensive studies of TL properties of materials, based on the simultaneous use of several different methods of analysis.

Time-correlated Single Photon Counting has been written in the hope that by relating the authors' experiences with a variety of different single photon counting systems, they may provide a useful service to users and potential users of this formidably sensitive technique. Of all the techniques available to obtain information on the rates of depopulation of excited electronic singlet states of molecular species, monitoring of fluorescence provides, in principle, the simplest and most direct measure of concentration. This volume comprises eight chapters, with the first focusing on the time dependence and applications of fluorescence. Succeeding chapters go on to discuss basic principles of the single photon counting lifetime measurement; light sources; photomultipliers; electronics; data analysis; nanosecond time-resolved emission spectroscopy; time dependence of fluorescence anisotropy. This book will be of interest to practitioners in the field of chemistry.