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Bioinformatics with Python Cookbook

You're reading from   Bioinformatics with Python Cookbook Solve advanced computational biology problems and build production pipelines with Python & AI tools

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Product type Paperback
Published in Jan 2026
Last Updated in Oct 2025
Publisher Packt
ISBN-13 9781836642756
Length 617 pages
Edition 4th Edition
Languages
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Author (1):
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Shane Brubaker Shane Brubaker
Author Profile Icon Shane Brubaker
Shane Brubaker
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Table of Contents (14) Chapters Close

1. Bioinformatics with Python Cookbook, Fourth Edition: Solve advanced computational biology problems and build production pipelines with Python & AI tools FREE CHAPTER
2. Chapter 1: Computer Specifications and Python Setup 3. Chapter 2: Basics of Data Manipulation 4. Chapter 3: Modern Coding Practices and AI-generated coding 5. Chapter 4: Data Science and Graphing 6. Chapter 5: Alignment and Variant Calling 7. Chapter 6: Annotation and Biological Interpretation 8. Chapter 7: Genomes and Genome Assembly 9. Chapter 8: Accessing Public Databases 10. Chapter 9: Protein Structure and Proteomics 11. Chapter 10: Phylogenetics 12. Chapter 11: Population Genetics 13. Chapter 12: Mectabolic Modeling and Other Applications 14. Chapter 13: Genome Editing

Technical requirements

It is important to note that, starting around 2020, Apple came out with its own chips instead of using Intel chips – these are referred to as Apple silicon chips. This change caused issues with older versions of Python and with some Python libraries. We should not encounter these in this book since we are using newer versions, but it is something to keep in mind if you ever run into issues. This book was developed on an Apple M2 Pro chip, which is an Apple silicon chip.The code in this book was developed and tested on a computer with the following specifications:

  • MacBook Pro
  • Chip: Apple M2 Pro
  • RAM: 16 GB
  • OS: Sequoia 15.1
  • Python version: 3.12.2

If you do not have a MacBook, there are several options you could explore using cloud workstations. These options will give you a handy alternative where you can set up the appropriate environment.If you have an AWS account, you can set up a macOS EC2 instance to use as a cloud workstation. They offer an M2 Mac Pro...

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