Beginning Perl for Bioinformatics
With its highly developed capacity to detect patterns in data, Perl has become one of the most popular languages for biological data analysis. But if you're a biologist with little or no programming experience, starting out in Perl can be a challenge. Many biologists have a difficult time learning how to apply the language to bioinformatics. The most popular Perl programming books are often too theoretical and too focused on computer science for a non-programming biologist who needs to solve very specific problems.Beginning Perl for Bioinformatics is designed to get you quickly over the Perl language barrier by approaching programming as an important new laboratory skill, revealing Perl programs and techniques that are immediately useful in the lab. Each chapter focuses on solving a particular bioinformatics problem or class of problems, starting with the simplest and increasing in complexity as the book progresses. Each chapter includes programming exercises and teaches bioinformatics by showing and modifying programs that deal with various kinds of practical biological problems. By the end of the book you'll have a solid understanding of Perl basics, a collection of programs for such tasks as parsing BLAST and GenBank, and the skills to take on more advanced bioinformatics programming. Some of the later chapters focus in greater detail on specific bioinformatics topics. This book is suitable for use as a classroom textbook, for self-study, and as a reference.The book covers: Programming basics and working with DNA sequences and strings Debugging your code Simulating gene mutations using random number generators Regular expressions and finding motifs in data Arrays, hashes, and relational databases Regular expressions and restriction maps Using Perl to parse PDB records, annotations in GenBank, and BLAST output
An Introduction to Language Processing with Perl and Prolog
This book teaches the principles of natural language processing and covers linguistics issues. It also details the language-processing functions involved, including part-of-speech tagging using rules and stochastic techniques. A key feature of the book is the author's hands-on approach throughout, with extensive exercises, sample code in Prolog and Perl, and a detailed introduction to Prolog. The book is suitable for researchers and students of natural language processing and computational linguistics.
Bioinformatics Biocomputing and Perl
Bioinformatics, Biocomputing and Perl presents a modern introduction to bioinformatics computing skills and practice. Structuring its presentation around four main areas of study, this book covers the skills vital to the day-to-day activities of today’s bioinformatician. Each chapter contains a series of maxims designed to highlight key points and there are exercises to supplement and cement the introduced material. Working with Perl presents an extended tutorial introduction to programming through Perl, the premier programming technology of the bioinformatics community. Even though no previous programming experience is assumed, completing the tutorial equips the reader with the ability to produce powerful custom programs with ease. Working with Data applies the programming skills acquired to processing a variety of bioinformatics data. In addition to advice on working with important data stores such as the Protein DataBank, SWISS-PROT, EMBL and the GenBank, considerable discussion is devoted to using bioinformatics data to populate relational database systems. The popular MySQL database is used in all examples. Working with the Web presents a discussion of the Web-based technologies that allow the bioinformatics researcher to publish both data and applications on the Internet. Working with Applications shifts gear from creating custom programs to using them. The tools described include Clustal-W, EMBOSS, STRIDE, BLAST and Xmgrace. An introduction to the important Bioperl Project concludes this chapter and rounds off the book.
Introduction to CGI Perl
A compact guide to creating customized programs for the World Wide Web, which introduces the essentials of Perl language and the Common Gateway Interface (CGI), then quickly moves on to cover forms and "comboforms." Topics include information-gathering and reporting with HTML and forms; customized client-server interaction with HTTP, including explanations of protocol nuances such as GET and POST; and text processing and management with the Perl language. Annotation copyright by Book News, Inc., Portland, OR
If you’re just getting started with Perl, this is the book you want—whether you’re a programmer, system administrator, or web hacker. Nicknamed "the Llama" by two generations of users, this bestseller closely follows the popular introductory Perl course taught by the authors since 1991. This seventh edition covers recent changes to the language up to version 5.24. Perl is suitable for almost any task on almost any platform, from short fixes to complete web applications. Learning Perl teaches you the basics and shows you how to write programs up to 128 lines long—roughly the size of 90% of the Perl programs in use today. Each chapter includes exercises to help you practice what you’ve just learned. Other books may teach you to program in Perl, but this book will turn you into a Perl programmer. Topics include: Perl data and variable types Subroutines File operations Regular expressions String manipulation (including Unicode) Lists and sorting Process management Smart matching Use of third party modules
Programming for Linguists
This book is an introduction to the rudiments of Perl programming. It provides the general reader with an interest in language with the most usable and relevant aspects of Perl for writing programs that deal with language. Exposes the general reader with an interest in language to the most usable and relevant aspects of Perl for writing programs that deal with language. Contains simple examples and exercises that gradually introduce the reader to the essentials of good programming. Assumes no prior programming experience. Accompanied by exercises at the end of each chapter and offers all the code on the companion website: http://www.u.arizona.edu/~hammond
Thinking Being Introduction to Metaphysics in the Classical Tradition
In Thinking Being, Perl articulates central arguments and ideas regarding the nature of reality in Parmenides, Plato, Aristotle, Plotinus, and Thomas Aquinas, thematizing the indissoluble togetherness of thought and being, and focusing on continuity rather than opposition within this tradition.
Sams Teach Yourself Perl in 21 Days
Sams Teach Yourself Perl in 21 Days covers the basics of Perl in the first few chapters, and then moves on to practical issues of Perl and in-depth discussions of more advanced topics. Later chapters also delve into software engineering topics, with discussions of modular code and object-oriented programming. CGI is covered in one chapter, but it is not the focus on the book. The book relies heavily on longer working examples and code, as opposed to small snippets and code fragments, and each chapter includes two to three smaller complete examples and one major one that illustrates most of the concepts for that chapter and builds on the chapters before it. Written by Laura Lemay, this is her third major book after Sams Teach Yourself Web Publishing with HTML in 21 Days and Sams Teach Yourself Java in 21 Days.
Computer Book Introduction
Please note that the content of this book primarily consists of articles available from Wikipedia or other free sources online. Pages: 31. Chapters: Effective Perl Programming, Computers and Intractability: A Guide to the Theory of NP-Completeness, What to Do After You Hit Return or P.C.C.'s First Book of Computer Games, Introduction to Algorithms, Underground, Artificial Intelligence: A Modern Approach, Computer: A History of the Information Machine, BASIC Computer Games, Electronic Life, The C++ Programming Language, Why's Guide to Ruby, De Re Atari, Code and Other Laws of Cyberspace, Open Source for the Enterprise: Managing Risks, Reaping Rewards, Decline and Fall of the American Programmer, SMARTBOMB: The Quest for Art, Entertainment, and Big Bucks in the Videogame Revolution, Enterprise Integration Patterns, The Tao of Programming, Chris Crawford on Game Design, The Art of Deception, Common Lisp the Language, Code Complete, Thinking in Java, Agile Web Development with Rails, Perl Cookbook, The Future of the Internet, Alphabet to E-mail, The Art of Unix Programming, Hitchhiker's Guide to the Internet, Dreaming in Code, Learning Python, 21st Century Game Design, Game Design: Theory and Practice, The Law of Cyber-Space, Weaving the Web: The Original Design and Ultimate Destiny of the World Wide Web by its inventor, Literary Machines, Higher-Order Perl, The Pragmatic Programmer, Programming Ruby, Principles of Compiler Design, C Traps and Pitfalls, Lecture Notes in Computer Science, Brute Force: Cracking the Data Encryption Standard, The Oracle J2EE Companion, The Art of Computer Game Design, Firewalls and Internet Security, The Secret Guide to Computers, Trigger Happy, A Theory of Fun for Game Design, The Book of Games Volume 2, The Macintosh Way, The Art of the Metaobject Protocol, Fun Inc, Practical Common Lisp, The Age of Intelligent Machines, Object-Oriented Programming in Common Lisp: A Programmer's Guide to CLOS, List of computer books, Learning C...
Perl Programming for Bioinformatics
This book introduces Bioinformatics and its tools and techniques to a new hybrid professional the biologist and the would-be informatician and encourages to use this vast and powerful resource to address biological problems.