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R Bioinformatics Cookbook

You're reading from   R Bioinformatics Cookbook Utilize R packages for bioinformatics, genomics, data science, and machine learning

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Product type Paperback
Published in Oct 2023
Publisher Packt
ISBN-13 9781837634279
Length 396 pages
Edition 2nd Edition
Languages
Tools
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Author (1):
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Dan MacLean Dan MacLean
Author Profile Icon Dan MacLean
Dan MacLean
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Table of Contents (16) Chapters Close

Preface 1. Chapter 1: Setting Up Your R Bioinformatics Working Environment 2. Chapter 2: Loading, Tidying, and Cleaning Data in the tidyverse FREE CHAPTER 3. Chapter 3: ggplot2 and Extensions for Publication Quality Plots 4. Chapter 4: Using Quarto to Make Data-Rich Reports, Presentations, and Websites 5. Chapter 5: Easily Performing Statistical Tests Using Linear Models 6. Chapter 6: Performing Quantitative RNA-seq 7. Chapter 7: Finding Genetic Variants with HTS Data 8. Chapter 8: Searching Gene and Protein Sequences for Domains and Motifs 9. Chapter 9: Phylogenetic Analysis and Visualization 10. Chapter 10: Analyzing Gene Annotations 11. Chapter 11: Machine Learning with mlr3 12. Chapter 12: Functional Programming with purrr and base R 13. Chapter 13: Turbo-Charging Development in R with ChatGPT 14. Index 15. Other Books You May Enjoy

Using the devtools package to work with the latest non-CRAN packages

A source R package contains the plain text source code for an R package, which can be installed and built on the user’s machine. A binary R package, on the other hand, is a pre-built version of an R package that contains pre-compiled code and can be installed and used directly without the need to build the package from the source, and without needing all the tools and programs needed for the compilation progress. When we install packages from CRAN using install.packages(), we are typically getting a pre-compiled binary version of the code.

The devtools R package is a collection of tools that make it easier to develop R packages. It includes functions for creating and installing source packages, building and reloading package documentation, and more. Additionally, it also provides functionality to check packages, build documentation, manage package dependencies, and test package functionality. It allows users...

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