Download or read book Practical Computing for Biologists written by Steven H.D. Haddock and published by Sinauer. This book was released on 2011-04-22 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Practical Computing for Biologists shows you how to use many freely available computing tools to work more powerfully and effectively. The book was born out of the authors' own experience in developing tools for their research and helping other biologists with their computational problems. Many of the techniques are relevant to molecular bioinformatics but the scope of the book is much broader, covering topics and techniques that are applicable to a range of scientific endeavours. Twenty-two chapters organized into six parts address the following topics (and more; see Contents): • Searching with regular expressions • The Unix command line • Python programming and debugging • Creating and editing graphics • Databases • Performing analyses on remote servers • Working with electronics While the main narrative focuses on Mac OS X, most of the concepts and examples apply to any operating system. Where there are differences for Windows and Linux users, parallel instructions are provided in the margin and in an appendix. The book is designed to be used as a self-guided resource for researchers, a companion book in a course, or as a primary textbook. Practical Computing for Biologists will free you from the most frustrating and time-consuming aspects of data processing so you can focus on the pleasures of scientific inquiry.
Download or read book Getting Started with R written by Andrew P. Beckerman and published by Oxford University Press. This book was released on 2017 with total page 251 pages. Available in PDF, EPUB and Kindle. Book excerpt: R is rapidly becoming the standard software for statistical analyses, graphical presentation of data, and programming in the natural, physical, social, and engineering sciences. Getting Started with R is now the go-to introductory guide for biologists wanting to learn how to use R in their research. It teaches readers how to import, explore, graph, and analyse data, while keeping them focused on their ultimate goals: clearly communicating their data in oral presentations, posters, papers, and reports. It provides a consistent workflow for using R that is simple, efficient, reliable, and reproducible. This second edition has been updated and expanded while retaining the concise and engaging nature of its predecessor, offering an accessible and fun introduction to the packages dplyr and ggplot2 for data manipulation and graphing. It expands the set of basic statistics considered in the first edition to include new examples of a simple regression, a one-way and a two-way ANOVA. Finally, it introduces a new chapter on the generalised linear model. Getting Started with R is suitable for undergraduates, graduate students, professional researchers, and practitioners in the biological sciences.
Download or read book Experimental Design for Biologists written by David J. Glass and published by CSHL Press. This book was released on 2007 with total page 211 pages. Available in PDF, EPUB and Kindle. Book excerpt: The effective design of scientific experiments is critical to success, yet graduate students receive very little formal training in how to do it. Based on a well-received course taught by the author, Experimental Design for Biologistsfills this gap. Experimental Design for Biologistsexplains how to establish the framework for an experimental project, how to set up a system, design experiments within that system, and how to determine and use the correct set of controls. Separate chapters are devoted to negative controls, positive controls, and other categories of controls that are perhaps less recognized, such as “assumption controls†and “experimentalist controls†. Furthermore, there are sections on establishing the experimental system, which include performing critical “system controls†. Should all experimental plans be hypothesis-driven? Is a question/answer approach more appropriate? What was the hypothesis behind the Human Genome Project? What color is the sky? How does one get to Carnegie Hall? The answers to these kinds of questions can be found in Experimental Design for Biologists. Written in an engaging manner, the book provides compelling lessons in framing an experimental question, establishing a validated system to answer the question, and deriving verifiable models from experimental data. Experimental Design for Biologistsis an essential source of theory and practical guidance in designing a research plan.
Download or read book Philosophy of Science for Biologists written by Kostas Kampourakis and published by Cambridge University Press. This book was released on 2020-09-24 with total page 341 pages. Available in PDF, EPUB and Kindle. Book excerpt: A short and accessible introduction to philosophy of science for students and researchers across the life sciences.
Download or read book The Vital Question written by Nick Lane and published by . This book was released on 2016 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: A game-changing book on the origins of life, called the most important scientific discovery 'since the Copernican revolution' in The Observer.
Download or read book Statistics for Terrified Biologists written by Helmut van Emden and published by John Wiley & Sons. This book was released on 2012-09-24 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: “We highly recommend it—not just for statistically terrified biology students and faculty, but also for those who are occasionally anxious or uncertain. In addition to being a good starting point to learn statistics, it is a useful place to return to refresh your memory.” –The Quarterly Review of Biology, March 2009 "During the entire course of my Ph.D. I've been (embarrasingly) looking for a way to teach myself the fundamentals of statistical analysis. At this point in my education, I've come to realize that often times, simply knowing the basics is enough for you to properly apply even the most complex analytical methods. ‘Statistics for Terrified Biologists’ has been just such a book - it was more than worth the $40 I spent on it, and while my 'book clubs' aren't meant to be reviews, I highly recommend the book to anyone who's in a similar predicament to my own." –Carlo Artieri's Blog Book Club The typical biology student is “hardwired” to be wary of any tasks involving the application of mathematics and statistical analyses, but the plain fact is much of biology requires interpretation of experimental data through the use of statistical methods. This unique textbook aims to demystify statistical formulae for the average biology student. Written in a lively and engaging style, Statistics for Terrified Biologists draws on the author’s 30 years of lecturing experience. One of the foremost entomologists of his generation, van Emden has an extensive track record for successfully teaching statistical methods to even the most guarded of biology students. For the first time basic methods are presented using straightforward, jargon-free language. Students are taught to use simple formulae accurately to interpret what is being measured with each test and statistic, while at the same time learning to recognize overall patterns and guiding principles. Complemented by simple illustrations and useful case studies, this is an ideal statistics resource tool for undergraduate biology and environmental science students who lack confidence in their mathematical abilities.
Download or read book Lives of a Biologist written by John Tyler. BONNER and published by Harvard University Press. This book was released on 2009-06-30 with total page 232 pages. Available in PDF, EPUB and Kindle. Book excerpt: Beginning with the discovery of genes on chromosomes and culminating with the unmasking of the most minute genetic mysteries, the twentieth century saw astounding and unprecedented progress in the science of biology. In an illustrious career that spanned most of the century, biologist John Bonner witnessed many of these advances firsthand. Part autobiography, part history of the extraordinary transformation of biology in his time, Bonner's book is truly a life in science, the story of what it is to be a biologist observing the unfolding of the intricacies of life itself. Bonner's scientific interests are nearly as varied as the concerns of biology, ranging from animal culture to evolution, from life cycles to the development of slime molds. And the extraordinary cast of characters he introduces is equally diverse, among them Julian Huxley, J. B. S. Haldane, Leon Trotsky, and Evelyn Waugh. Writing with a charm and freshness that bring the most subtle nuances of science to life, he pursues these interests through the hundred years that gave us the discovery of embryonic induction; the interpretation of evolution in terms of changes in gene frequency in a population; growth in understanding of the biochemistry of the cell; the beginning of molecular genetics; remarkable insights into animal behavior; the emergence of sociobiology; and the simplification of ecological and evolutionary principles by means of mathematical models. In this panoramic view, we see both the sweep of world events and scientific progress and the animating details, the personal observations and experiences, of a career conducted in their midst. In Bonner's view, biology is essentially the study of life cycles. His book, marking the cycles of a life in biology, is a fitting reflection of this study, with its infinite, and infinitesimal, permutations. Table of Contents: Preface 1. The World of My Elders: 1900-1920 2. Becoming a Biologist: 1920-1940 3. Everything Peaks: 1940-1960 4. Revolution and Progress: 1960-1980 5. Coming Together: 1980-2000 Index Reviews of this book: A charming memoir combining autobiography and a 20th-century history of biology. "A gentleman and a scholar" aptly describes Bonner...Bonner's own lifecycle makes for pleasant reading and inspires a new respect for slime molds. --Kirkus Reviews Reviews of this book: Bonner has devoted much of his imaginative and creative biological research of the intervening years to cellular slime molds, which lead fascinating and, before Bonner's work, previously largely unexplained lives. His accounts of his and his graduate students' thinking and experiments convey much of the scientific approach to problems lucidly, and those of his travels, his vacations in Nova Scotia over the course of 40 years, and the many amusing and illuminating incidents in his life reflect a refreshing open'mindedness. This is one scientist's autobiography that manages to be simultaneously delightful and strikingly informative. --William Beatty, Booklist Reviews of this book: This charming and unduly modest book is part memoir, part distillation of 20th-century biology, as told by an eminent researcher, writer and teacher who witnessed much of it firsthand. Bonner...invokes life cycles and development, his specialties, to talk about the last century's gigantic steps forward in biology. He covers advances in biochemistry, population genetics and embryology; the discovery of DNA structure; and the human genome project. Against this parade of discoveries, Bonner considers his own career, which included everything from animal social behavior to evolution. --Publishers Weekly Reviews of this book: John Tyler Bonner had the luck to be born into a family that lived a charmed life, the fortune to find a lifelong passion and the timing to live at the heyday of his favorite subject. In his autobiography, The Lives of a Biologist: Adventures in a Century of Extraordinary Science, Bonner...smoothly integrates advances in biology during the 20th century with tales from a life that now stretches into its ninth decade. In simple but elegant prose, he revisits some of the most important biological advances, from embryology to molecular genetics. --Sally Squires, Washington Post Reviews of this book: Here is a man of prodigious scientific talent, who emerges in Lives of a Biologist as the best kind of scientist--a man fascinated by the things he is investigating, and finding great joy in them...This is a life well and fulfillingly lived, told with warmth and humor. --John R. G. Turner, New York Times Book Review Reviews of this book: This memoir by the great celebrant of slime moulds offers a fascinating overview of a century of biology. Bonner tells of changes in biological thinking, and his own pervasive influence in the study of life cycles and morphogenesis. --New Scientist Reviews of this book: [A] gracefully written memoir...Bonner, who began his career as an embryologist, provides many insights regarding the changing fashions he and others have observed in the field of developmental biology. --K. B. Sterling, Choice A gracious and immensely enjoyable memoir from an era in which scientists could still be gentlemen. Bonner's generosity of spirit shines through on almost every page. --Evelyn Fox Keller, MIT Imagine a wonderful writer who just keeps writing book after book and just keeps getting more and more readable with each one. That's John Bonner. Now he's done a memoir full of magic names from the past, where his kind humor softens a keen eye for human antics including his own. If you like biology, biography, and history of science and don't mind having fun reading it, then this book is for you. I would get two, one to keep and one to loan." --Mary Jane West-Eberhard Smithsonian Tropical Research Institute Surely there can be few scientists with the breadth of knowledge, the puckish wit and the all-round modest good humor that John Bonner displays in this splendid memoir. Long may he write! --Anne Firor Scott, W.K. Boyd Professor of History emerita, Duke University A charming, personal account of the ascendance of the life sciences to their current dominance by someone who has been there. Few biologists grasp their discipline at as many levels as John Tyler Bonner does, and even fewer can claim as many firsthand encounters with the greats of the past century. The result is an autobiography that is both delightful and informative. --Frans de Waal, Living Links Center at Emory University This is a delightful memoir by one of the most charming and well-spoken biologists on the planet. John Tyler Bonner's career now spans half a dozen scientific generations, from each of which he has gathered friends and wisdom. In looking back, he illuminates both the story of his life and the story of life. --Jonathan Weiner, author of The Beak of the Finch and Time, Love, and Memory
Download or read book Computing Skills for Biologists written by Stefano Allesina and published by Princeton University Press. This book was released on 2019-01-15 with total page 440 pages. Available in PDF, EPUB and Kindle. Book excerpt: A concise introduction to key computing skills for biologists While biological data continues to grow exponentially in size and quality, many of today’s biologists are not trained adequately in the computing skills necessary for leveraging this information deluge. In Computing Skills for Biologists, Stefano Allesina and Madlen Wilmes present a valuable toolbox for the effective analysis of biological data. Based on the authors’ experiences teaching scientific computing at the University of Chicago, this textbook emphasizes the automation of repetitive tasks and the construction of pipelines for data organization, analysis, visualization, and publication. Stressing practice rather than theory, the book’s examples and exercises are drawn from actual biological data and solve cogent problems spanning the entire breadth of biological disciplines, including ecology, genetics, microbiology, and molecular biology. Beginners will benefit from the many examples explained step-by-step, while more seasoned researchers will learn how to combine tools to make biological data analysis robust and reproducible. The book uses free software and code that can be run on any platform. Computing Skills for Biologists is ideal for scientists wanting to improve their technical skills and instructors looking to teach the main computing tools essential for biology research in the twenty-first century. Excellent resource for acquiring comprehensive computing skills Both novice and experienced scientists will increase efficiency by building automated and reproducible pipelines for biological data analysis Code examples based on published data spanning the breadth of biological disciplines Detailed solutions provided for exercises in each chapter Extensive companion website
Download or read book The Dialectical Biologist written by Richard Levins and published by Harvard University Press. This book was released on 1987-03-15 with total page 322 pages. Available in PDF, EPUB and Kindle. Book excerpt: Scientists act within a social context and from a philosophical perspective that is inherently political. Whether they realize it or not, scientists always choose sides. The Dialectical Biologist explores this political nature of scientific inquiry, advancing its argument within the framework of Marxist dialectic. These essays stress the concepts of continual change and codetermination between organism and environment, part and whole, structure and process, science and politics. Throughout, this book questions our accepted definitions and biases, showing the self-reflective nature of scientific activity within society.
Download or read book Biologists Under Hitler written by Ute Deichmann and published by Harvard University Press. This book was released on 1996 with total page 496 pages. Available in PDF, EPUB and Kindle. Book excerpt: Her book also provides overwhelming evidence of German scientists' conscious misrepresentation after the war of their wartime activities. In this regard, Deichmann's capsule biography of Konrad Lorenz is particularly telling.
Download or read book Entropy for Biologists written by Harold J. Morowitz and published by Elsevier. This book was released on 2013-09-03 with total page 212 pages. Available in PDF, EPUB and Kindle. Book excerpt: Entropy for Biologists: An Introduction to Thermodynamics is an introductory book for people in the life sciences who wish to master the concepts of thermal physics without being forced to a degree and rate of symbol manipulation which is foreign to their patterns of thought. The book opens with a chapter on temperature, followed by separate chapters that discuss the concepts of energy, kinetic theory, total energy, the second law of thermodynamics, entropy, and probability and information theory. Subsequent chapters deal with statistical mechanics and its relation to thermodynamics, free-energy functions, applications of the Gibbs free energy and the Gibbs chemical potential, and measurement in thermal physics. The book is primarily directed at those graduate and advanced undergraduate students of biology and biochemistry who wish to develop a sense of confidence about their understanding of the thermal physics which will be useful in pursuing their work. It may also prove useful to professionals who wish to bolster their knowledge in this area.
Download or read book A Biologist s Guide to Mathematical Modeling in Ecology and Evolution written by Sarah P. Otto and published by Princeton University Press. This book was released on 2011-09-19 with total page 745 pages. Available in PDF, EPUB and Kindle. Book excerpt: Thirty years ago, biologists could get by with a rudimentary grasp of mathematics and modeling. Not so today. In seeking to answer fundamental questions about how biological systems function and change over time, the modern biologist is as likely to rely on sophisticated mathematical and computer-based models as traditional fieldwork. In this book, Sarah Otto and Troy Day provide biology students with the tools necessary to both interpret models and to build their own. The book starts at an elementary level of mathematical modeling, assuming that the reader has had high school mathematics and first-year calculus. Otto and Day then gradually build in depth and complexity, from classic models in ecology and evolution to more intricate class-structured and probabilistic models. The authors provide primers with instructive exercises to introduce readers to the more advanced subjects of linear algebra and probability theory. Through examples, they describe how models have been used to understand such topics as the spread of HIV, chaos, the age structure of a country, speciation, and extinction. Ecologists and evolutionary biologists today need enough mathematical training to be able to assess the power and limits of biological models and to develop theories and models themselves. This innovative book will be an indispensable guide to the world of mathematical models for the next generation of biologists. A how-to guide for developing new mathematical models in biology Provides step-by-step recipes for constructing and analyzing models Interesting biological applications Explores classical models in ecology and evolution Questions at the end of every chapter Primers cover important mathematical topics Exercises with answers Appendixes summarize useful rules Labs and advanced material available
Download or read book Geometric Morphometrics for Biologists written by Miriam Zelditch and published by Academic Press. This book was released on 2012-09-24 with total page 489 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first edition of Geometric Morphometrics for Biologists has been the primary resource for teaching modern geometric methods of shape analysis to biologists who have a stronger background in biology than in multivariate statistics and matrix algebra. These geometric methods are appealing to biologists who approach the study of shape from a variety of perspectives, from clinical to evolutionary, because they incorporate the geometry of organisms throughout the data analysis. The second edition of this book retains the emphasis on accessible explanations, and the copious illustrations and examples of the first, updating the treatment of both theory and practice. The second edition represents the current state-of-the-art and adds new examples and summarizes recent literature, as well as provides an overview of new software and step-by-step guidance through details of carrying out the analyses. Contains updated coverage of methods, especially for sampling complex curves and 3D forms and a new chapter on applications of geometric morphometrics to forensics Offers a reorganization of chapters to streamline learning basic concepts Presents detailed instructions for conducting analyses with freely available, easy to use software Provides numerous illustrations, including graphical presentations of important theoretical concepts and demonstrations of alternative approaches to presenting results
Download or read book Experimental Design and Data Analysis for Biologists written by Gerry P. Quinn and published by Cambridge University Press. This book was released on 2002-03-21 with total page 851 pages. Available in PDF, EPUB and Kindle. Book excerpt: An essential textbook for any student or researcher in biology needing to design experiments, sample programs or analyse the resulting data. The text begins with a revision of estimation and hypothesis testing methods, covering both classical and Bayesian philosophies, before advancing to the analysis of linear and generalized linear models. Topics covered include linear and logistic regression, simple and complex ANOVA models (for factorial, nested, block, split-plot and repeated measures and covariance designs), and log-linear models. Multivariate techniques, including classification and ordination, are then introduced. Special emphasis is placed on checking assumptions, exploratory data analysis and presentation of results. The main analyses are illustrated with many examples from published papers and there is an extensive reference list to both the statistical and biological literature. The book is supported by a website that provides all data sets, questions for each chapter and links to software.
Download or read book Maths from Scratch for Biologists written by Alan J. Cann and published by John Wiley & Sons. This book was released on 2013-04-25 with total page 199 pages. Available in PDF, EPUB and Kindle. Book excerpt: Numerical ability is an essential skill for everyone studying the biological sciences but many students are frightened by the 'perceived' difficulty of mathematics, and are nervous about applying mathematical skills in their chosen field of study. Having taught introductory maths and statistics for many years, Alan Cann understands these challenges and just how invaluable an accessible, confidence building textbook could be to the fearful student. Unable to find a book pitched at the right level, that concentrated on why numerical skills are useful to biologists, he wrote his own. The result is Maths from Scratch for Biologists , a highly instructive, informal text that explains step by step how and why you need to tackle maths within the biological sciences. Features: * An accessible, jargon-busting approach to help readers master basic mathematical, statistical and data handling techniques in biology * Numerous end of chapter problems to reinforce key concepts and encourage students to test their newly acquired skills through practise * A handy, time-saving glossary * A supplementary website with numerous problems and self-test exercises
Download or read book Computing for Biologists written by Ran Libeskind-Hadas and published by Cambridge University Press. This book was released on 2014-09-22 with total page 289 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computing is revolutionizing the practice of biology. This book, which assumes no prior computing experience, provides students with the tools to write their own Python programs and to understand fundamental concepts in computational biology and bioinformatics. Each major part of the book begins with a compelling biological question, followed by the algorithmic ideas and programming tools necessary to explore it: the origins of pathogenicity are examined using gene finding, the evolutionary history of sex determination systems is studied using sequence alignment, and the origin of modern humans is addressed using phylogenetic methods. In addition to providing general programming skills, this book explores the design of efficient algorithms, simulation, NP-hardness, and the maximum likelihood method, among other key concepts and methods. Easy-to-read and designed to equip students with the skills to write programs for solving a range of biological problems, the book is accompanied by numerous programming exercises, available at www.cs.hmc.edu/CFB.
Download or read book Biology Is Technology written by Robert H. Carlson and published by Harvard University Press. This book was released on 2011-04-15 with total page 290 pages. Available in PDF, EPUB and Kindle. Book excerpt: “Essential reading for anyone who wishes to understand the current state of biotechnology and the opportunities and dangers it may create.” —American Scientist Technology is a process and a body of knowledge as much as a collection of artifacts. Biology is no different—and we are just beginning to comprehend the challenges inherent in the next stage of biology as a human technology. It is this critical moment, with its wide-ranging implications, that Robert Carlson considers in Biology Is Technology. He offers a uniquely informed perspective on the endeavors that contribute to current progress in this area—the science of biological systems and the technology used to manipulate them. In a number of case studies, Carlson demonstrates that the development of new mathematical, computational, and laboratory tools will facilitate the engineering of biological artifacts—up to and including organisms and ecosystems. Exploring how this will happen, with reference to past technological advances, he explains how objects are constructed virtually, tested using sophisticated mathematical models, and finally constructed in the real world. Such rapid increases in the power, availability, and application of biotechnology raise obvious questions about who gets to use it, and to what end. Carlson’s thoughtful analysis offers rare insight into our choices about how to develop biological technologies and how these choices will determine the pace and effectiveness of innovation as a public good.
