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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
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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

Introducing scikit-learn with PCA

In this recipe we’ll use an important data science technique to analyze the key factors in a sample breast cancer dataset.PCA is a statistical procedure that’s used to linearly uncorrelated components that explain as much of the variation in a dataset as possible. In this way it performs dimensionality reduction, meaning that we find a simpler or lower-dimensional representation of a more complex, or higher-dimensional dataset, thereby giving us a handle on key features that help explain the data in a powerful way. This step of finding explanatory features is a key first step in machine learning.In this recipe, we will implement PCA using the scikit-learn library. Scikit-learn is one of the fundamental Python libraries for machine learning. PCA is a form of unsupervised machine learning – meaning we don’t provide information about the class of the sample. We will discuss supervised techniques in the other recipes of this chapter...

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