Practical Computing for Biologists [Paperback] Author: Casey Dunn | Language: English | ISBN:
0878933913 | Format: PDF, EPUB
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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:
- 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.
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- Paperback: 538 pages
- Publisher: Sinauer Associates, Inc.; First edition (November 5, 2010)
- Language: English
- ISBN-10: 0878933913
- ISBN-13: 978-0878933914
- Product Dimensions: 9.1 x 7.6 x 1 inches
- Shipping Weight: 2.5 pounds (View shipping rates and policies)
I am a graduate student in biology and frequently feel like the learning of new skills, that are extremely useful for my present and future work, requires the commitment to that learning for a longer time period than I actually have. If these skills are in another discipline, then the commitment has to be even stronger.
The main thing that should be changed about the book Practical Computing for Biologists is the title. A more suitable and informative title would be "Demystifying computing for biologists" or even "Demystifying computing for scientists". The authors clearly explain how to tackle problems that biologists in all career stages face frequently, and in doing so, introduce the fundamental concepts of computer science. By reading the book, the biologist learns that he/she can write a one line command in the terminal window (which take 30 seconds), that will save him/her hours of work. The scientist can also create a small program that will peruse archives of data (be it genomic data, ecological data, literary data) with a defined frequency to look for specific information. This way, a daily routine spent in front of a computer can be replaced by this program and time can be used in other tasks (in the case of biologists, bench work, paper writing, etc). And while writing and running these problems, the scientist gets familiarized with words and symbols such as bash, "shebang", sudo and { }.
The authors lead the reader through the intricacies of computer science without the readers knowledge, and without the need to purchase software, as the one required is mostly open source.
This book will not make you an expert in computer science, but you will certainly feel like you started understanding the field.
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