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Practical Computing for Biologists Steven H. D. Haddock (, University of California, Santa Cruz)

Practical Computing for Biologists By Steven H. D. Haddock (, University of California, Santa Cruz)

Practical Computing for Biologists by Steven H. D. Haddock (, University of California, Santa Cruz)


$132.99
Condition - Very Good
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Summary

Published by Sinauer Associates, an imprint of Oxford University Press. 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.

Practical Computing for Biologists Summary

Practical Computing for Biologists by Steven H. D. Haddock (, University of California, Santa Cruz)

Published by Sinauer Associates, an imprint of Oxford University Press. Increasingly, scientists find themselves facing exponentially larger data sets and analyses without suitable tools to deal with them. Many biologists end up using spreadsheet programs for most of their data-processing tasks and spend hours clicking around or copying and pasting, and then repeating the process for other data files. 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. Although many of the techniques are relevant to molecular bioinformatics, the motivation for the book is much broader, focusing on topics and techniques that are applicable to a range of scientific endeavors. Twenty-two chapters organized into six parts address these 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 most of the concepts and examples apply to any operating system, the main narrative focuses on Mac OS X. 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.

Practical Computing for Biologists Reviews

Practical Computing for Biologists is a clear guide to methods that unlock the power of the personal computer. Although the breadth of subjects covered is certainly an asset of this volume, what really makes the book stand out is how well the authors clearly describe each technique and its applicability to biological sciences. It is a great launching point for any necessary further investigation of computational techniques. * Matthew Aiello-Lammens, The Quarterly Review of Biology *
The book covers a wide range of subjects that truly justifies the title of 'practical computing.' In addition to the usual programming-related topics, it also includes a thorough introduction to the programming environment, approaches to combining different programs together, a description of the basic text manipulation tools such as regular expressions, and even an introduction to dealing with digital art and images. As such the book is great value for the money, being at least three books in one. * Olga G. Troyanskaya, Cell *
My copy of Practical Computing for Biologists arrived last week, and I've been very impressed. It is a well-written, well-paced guide to basic computing skills for scientists and engineers of all stripes (not just biologists). It is beautifully produced: full-color printing and great graphical design make this book a joy to read. If I ever do turn Software Carpentry into a book, I might skip the topics PCB covers and just tell people to go and buy it. * Greg Wilson, software-carpentry.org *
When considering my research and use of time, this book has been the most important book I've read in the last year, and perhaps the last decade. Striking a perfect balance by guiding you through tutorials and nudging your own self-exploration, the book has just enough guided direction to not annoy or overwhelm. It has helped (and is still helping) me to do what I was doing before, but more efficiently. * Cyme & Cystidium *

About Steven H. D. Haddock (, University of California, Santa Cruz)

Steven H.D. Haddock is a Research Scientist at the Monterey Bay Aquarium Research Institute and adjunct Associate Professor at the University of California, Santa Cruz, studying bioluminescence and biodiversity of gelatinous zooplankton. He started programming in BASIC on an Apple ][ and began his undergraduate studies in engineering before deciding to change fields. He took this programming background with him to his graduate studies in Marine Biology, where he quickly realized the advantages that computing skills offered and felt compelled to help foster these abilities in others. He has developed many utilities and devices for research, including instruments to monitor bioluminescence from fireflies, a freezer monitoring system, a web-based conference registration database, and a PCR calculator for smartphones. Casey W. Dunn, a Professor at Yale University, does research that has a large computational component but always in conjunction with work in the field and lab. His first interest in computers stemmed from building electronics, and he further developed his computational skills working in Silicon Valley while an undergraduate. As his data sets grew larger and larger during grad school and his postdoc, he found himself reaching back to his computer background more often. In the course of his own research and helping other biologists with their computational challenges, he became concerned about the mismatch between training opportunities and the real day-to-day computational problems biologists face.

Table of Contents

Before You Begin.- PART I: TEXT FILES.- Getting Set Up.- Regular Expressions: Powerful Search & Replace.- Exploring the Flexibility of Regular Expressions.- PART II: THE SHELL.- Command-line Operations: The Shell.- Handling Text in the Shell.- Scripting with the Shell.- PART III: PROGRAMMING.- Components of Programming.- Beginning Python Programming.- Decisions and Loops.- Reading and Writing Files.- Merging Files.- Modules and Libraries.- Debugging Strategies.- PART IV: COMBINING METHODS.- Selecting and Combining Tools.- Relational Databases.- Advanced Shell and Pipelines.- PART V: GRAPHICS.- Graphical Concepts.- Working with Vector Art.- Working with Pixel Images.- PART VI: ADVANCED TOPICS.- Working on Remote Computers.- Installing Software.- Electronics: Interacting with the Physical World.- APPENDICES.- Working with other Operating Systems.- Regular Expression Search Terms.- Shell Commands.- Python Quick Reference.- Template Programs.- Binary, Hex, and ASCII.- SQL Commands.- Index.

Additional information

GOR004283782
9780878933914
0878933913
Practical Computing for Biologists by Steven H. D. Haddock (, University of California, Santa Cruz)
Used - Very Good
Paperback
Oxford University Press Inc
2010-11-05
538
N/A
Book picture is for illustrative purposes only, actual binding, cover or edition may vary.
This is a used book - there is no escaping the fact it has been read by someone else and it will show signs of wear and previous use. Overall we expect it to be in very good condition, but if you are not entirely satisfied please get in touch with us

Customer Reviews - Practical Computing for Biologists