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

Product type Paperback

Published in Jan 2026

Last Updated in Oct 2025

Publisher Packt

ISBN-13 9781836642756

Length 617 pages

Edition 4th Edition

Languages

Python

Tools

Jupyter

Concepts

Data Science

Author (1):

Shane Brubaker

View More author details

Table of Contents (14) Chapters

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

Using linting tools and style guides to write accurate, well-formed code

A variety of tools exist for the modern Python programmer to use to improve their code and ensure consistency of style. Many times, these tools are run automatically when checking code as part of CI/CD (continuous integration/continuous deployment). Many organizations also adopt style guides that go beyond just “does the code work” to specify how code would be written to be understandable and visually clear. Linting is a process for analyzing code syntax and style inconsistencies. PyLint is a popular Python tool for this.One of the most popular style guides to know about for Python is PEP8. This style is enforced by many programs such as PyLint, and PyCodeStyle which we will use in our Jupyter notebook.In this recipe we will learn about a few common tools for style enforcement in Python and learn to run them both from the terminal and from within our notebooks.