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R Bioinformatics Cookbook

You're reading from   R Bioinformatics Cookbook Use R and Bioconductor to perform RNAseq, genomics, data visualization, and bioinformatic analysis

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Product type Paperback
Published in Oct 2019
Publisher Packt
ISBN-13 9781789950694
Length 316 pages
Edition 1st Edition
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Authors (2):
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Dr Dan Maclean Dr Dan Maclean
Author Profile Icon Dr Dan Maclean
Dr Dan Maclean
Dan MacLean Dan MacLean
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Dan MacLean
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Toc

Table of Contents (13) Chapters Close

Preface 1. Performing Quantitative RNAseq 2. Finding Genetic Variants with HTS Data FREE CHAPTER 3. Searching Genes and Proteins for Domains and Motifs 4. Phylogenetic Analysis and Visualization 5. Metagenomics 6. Proteomics from Spectrum to Annotation 7. Producing Publication and Web-Ready Visualizations 8. Working with Databases and Remote Data Sources 9. Useful Statistical and Machine Learning Methods 10. Programming with Tidyverse and Bioconductor 11. Building Objects and Packages for Code Reuse 12. Other Books You May Enjoy

Constructing circular genome plots of polyomic data

A whole genome analysis of multiple data series is often presented in a circular manner with concentric circles, each showing different kinds of data with a different representation in each. These plots, called Circos plots, are extremely powerful and can show a lot of dense information in a compact form. In this recipe, we'll look at constructing such plots in R from common genomics data files.

Getting ready

To make Circos plots, we'll use the circlize package and the four files prefixed with arabidopsis in the datasets/ch7/ folder of this book's repository.

How...

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