Mastering Perl for Bioinformatics 

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• 1. Main Page

• 2. Table of content

• 3. Copyright

  Copyright

• 4. Foreword

  Foreword

• 5. Preface

  Preface

• 6. About This Book

  About This Book

• 7. What You Need to Know to Use This Book

  What You Need to Know to Use This Book

• 8. Organization of This Book

  Organization of This Book

• 9. Conventions Used in This Book

  Conventions Used in This Book

• 10. Comments and Questions

  Comments and Questions

• 11. Acknowledgments

  Acknowledgments

• 12. Part I: Object-Oriented Programming in Perl

• 13. Chapter 1. Modular Programming with Perl

  Chapter 1. Modular Programming with Perl

• 14. 1.1 What Is a Module?

  1.1 What Is a Module?

• 15. 1.2 Why Perl Modules?

  1.2 Why Perl Modules?

• 16. 1.3 Namespaces

  1.3 Namespaces

• 17. 1.4 Packages

  1.4 Packages

• 18. 1.5 Defining Modules

  1.5 Defining Modules

• 19. 1.6 Storing Modules

  1.6 Storing Modules

• 20. 1.7 Writing Your First Perl Module

  1.7 Writing Your First Perl Module

• 21. 1.8 Using Modules

  1.8 Using Modules

• 22. 1.9 CPAN Modules

  1.9 CPAN Modules

• 23. 1.10 Exercises

  1.10 Exercises

• 24. Chapter 2. Data Structures and String Algorithms

  Chapter 2. Data Structures and String Algorithms

• 25. 2.1 Basic Perl Data Types

  2.1 Basic Perl Data Types

• 26. 2.2 References

  2.2 References

• 27. 2.3 Matrices

  2.3 Matrices

• 28. 2.4 Complex Data Structures

  2.4 Complex Data Structures

• 29. 2.5 Printing Complex Data Structures

  2.5 Printing Complex Data Structures

• 30. 2.6 Data Structures in Action

  2.6 Data Structures in Action

• 31. 2.7 Dynamic Programming

  2.7 Dynamic Programming

• 32. 2.8 Approximate String Matching

  2.8 Approximate String Matching

• 33. 2.9 Resources

  2.9 Resources

• 34. 2.10 Exercises

  2.10 Exercises

• 35. Chapter 3. Object-Oriented Programming in Perl

  Chapter 3. Object-Oriented Programming in Perl

• 36. 3.1 What Is Object-Oriented Programming?

  3.1 What Is Object-Oriented Programming?

• 37. 3.2 Using Perl Classes (Without Writing Them)

  3.2 Using Perl Classes (Without Writing Them)

• 38. 3.3 Objects, Methods, and Classes in Perl

  3.3 Objects Methods and Classes in Perl

• 39. 3.4 Arrow Notation (-)

  3.4 Arrow Notation (-)

• 40. 3.5 Gene1: An Example of a Perl Class

  3.5 Gene1: An Example of a Perl Class

• 41. 3.6 Details of the Gene1 Class

  3.6 Details of the Gene1 Class

• 42. 3.7 Gene2.pm: A Second Example of a Perl Class

  3.7 Gene2.pm: A Second Example of a Perl Class

• 43. 3.8 Gene3.pm: A Third Example of a Perl Class

  3.8 Gene3.pm: A Third Example of a Perl Class

• 44. 3.9 How AUTOLOAD Works

  3.9 How AUTOLOAD Works

• 45. 3.10 Cleaning Up Unused Objects with DESTROY

  3.10 Cleaning Up Unused Objects with DESTROY

• 46. 3.11 Gene.pm: A Fourth Example of a Perl Class

  3.11 Gene.pm: A Fourth Example of a Perl Class

• 47. 3.12 How to Document a Perl Class with POD

  3.12 How to Document a Perl Class with POD

• 48. 3.13 Additional Topics

  3.13 Additional Topics

• 49. 3.14 Resources

  3.14 Resources

• 50. 3.15 Exercises

  3.15 Exercises

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