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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
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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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Toc

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 Quarto to Make Data-Rich Reports, Presentations, and Websites

Literate computing is the practice of embedding human-readable explanations and annotations within computer code, making it easier for both the author and other developers to understand and reuse the code. The main goal of literate computing is to create readable, reusable code that can be understood not only by machines but by humans as well.

One of the key tools for literate computing is Markdown. Markdown is a simple markup language that allows for the creation of easily readable documents that can be converted to Hypertext Markup Language (HTML) and other documents, including Word, for display on varied platforms. Markdown is easy to write and understand, even for non-technical users.

R Markdown, a variant of Markdown with R in mind, provides a simple way to embed R code within a document, alongside narrative text and visualizations, to create a complete report. One of the main advantages of using R Markdown...

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