Perl for Exploring DNA / Edition 1

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Overview

This book is for the intrepid biological explorer in need of just enough Perl programming language, but without the time or inclination to become a fluent speaker. In Perl for Exploring DNA, Mark LeBlanc and Betsey Dyer present an enjoyable and hands-on guide to DNA sequence analysis. This can be depicted as a linear map of As, Cs, Gs, and Ts; however, such a map only hints at the varied contours and crevices, twists, kinks, loops, and nodes of the extraordinary double helix. Join the authors on a computational expedition as they uncover why Perl is the language of choice when identifying patterns in strings of text.

The authors offer a simplified approach to programming that is directly applicable to biological sequence analysis. Benefiting from years of teaching experience in both computer science and biology, they provide an exceptionally friendly and pedagogically sound introduction to Perl that emphasizes good programming practices. Concepts include numerous creative approaches to working with strings and files of sequence data, regular expressions, control structures, subroutines, and data structures including arrays and hash tables.

About the Author:
Mark D. LeBlanc, Professor of Computer Science

About the Author:
Betsey Dexter Dyer, Professor of Biology, both of Wheaton College

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Product Details

  • ISBN-13: 9780195305890
  • Publisher: Oxford University Press
  • Publication date: 8/10/2007
  • Edition description: New Edition
  • Edition number: 1
  • Pages: 288
  • Product dimensions: 9.80 (w) x 7.00 (h) x 0.60 (d)

Table of Contents

Introduction: Explorations and Indexes     3
Essential First Steps: Installing Perl Plus a Programming Environment     13
Your First Perl Programs with a Focus on String Analysis     17
String Play with Regular Expressions     47
Using Perl to Do Calculations     77
Making Decisions Over and Over Again with Perl's if and while     93
Subroutines     117
Accessing Files of Sequences from Databases     135
Arrays     151
Hash Tables     179
Phrasing Questions by Writing Algorithms     203
Regular Expressions Revisited     217
Understanding Randomness     233
Modules     247
Conclusions     259
How to Isolate DNA from Strawberries     261
Bioinformatics as Part of the Solution     263
Bibliography     265
Index     267
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