Bioinformatics with R Cookbook

by Paurush Praveen Sinha

This book is an easy-to-follow, stepwise guide to handle real life Bioinformatics problems. Each recipe comes with a detailed explanation to the solution steps. A systematic approach, coupled with lots of illustrations, tips, and tricks will help you as a reader grasp even the trickiest of concepts without difficulty.This book is ideal for computational biologists and bioinformaticians with basic knowledge of R programming, bioinformatics and statistics. If you want to understand various critical concepts needed to develop your computational models in Bioinformatics, then this book is for you. Basic knowledge of R is expected.

340 pages, ebook

First published January 1, 2014

Reviews

[Uchit Vyas]

This cookbook has kept up with the increasing focus on R technology and integration with the typical components of Bioinformatics. There is much strength associated with this text but as per my experience, I have found some really good topics like chapter 5: Analyzing Microarray data with R, Chapter 8: Analyzing NGS data with R will be the greatest wonder of this book. Another strength of this book is the resource list of images with images and Appendix section at the end of book chapters. Once students discover this book's usefulness, they consult it in conjunction with every Bioinformatics related tasks with R, saving me time and encouraging them to participate more fully in their own learning for R for Bioinformatics.
The author, Paurush Sinha, gives easy-to-understand explanations to describe what can be possible with R and related technologies. I recommend to this book to anyone who wants to learn more on bioinformatics using R and its terminologies. The book is also useful due to the fact that examples are presented from a variety of real time levels But be warned, you'll be left with more questions! You'll be ready to start your own search for other R explanations and integrations about what you see happening all around you.
This book does have a few drawbacks. First, for those not familiar with technology or for those yet unfamiliar with some of the main challenges brought up by R learners, some of the writing in this book may seem foreign at first. The incorporation of terms from both the technology and Bioinformatics fields can make the reading difficult for some. Although it is apparent that the author wanted their book to be an accessible souce for non-experts, it sometimes falls short of this goal with the extended use of technical terms and wordy sentences.
Overall, this book provides many insights into the use of technology to enable Bioinformatics learners to acquire grip to their full capacity with R. And, for those unfamiliar with R technology, this book presents them with basic information about the tools and technology that can make their understanding not only a technology specific, but a learning real-time scenarios as well.

[Arnold Salvacion · Rating 3 out of 5]

This book is intended for individuals working on the areas of biology and genetics. Most of the techniques and type of analysis (i.e. sequence, protein structure, microarray, etc.) discussed in the book are tailored for practitioners handling genomics data. A typical cookbook style material, the focus of the book is on how to implement the above mentioned techniques using R. The book also tackles procedure on how to connect with genomics databases such as Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology as through the Bioconductor platform. It also tackles access some cloud base implementation of R.
The structure of the discussion is very helpful and easy to follow. The How to Do it, How it works, and There’s more.. sequence of discussion provides readers a good guide and grasp on the techniques that are being discussed.
On the other hand, the book is somehow lacking in the discussion of the basics of R software (i.e. intro to the language and data type). The book assumes that the readers have already acquired these basic know how about the language.
Overall, the book is a good reference material especially for individuals dealing with data on biology and genomics.

[Alvaro Tejada Galindo · Rating 4 out of 5]

I was excited to read this book, because it's been a while since I read any R book...but...I gotta admit...this is not my kind of book...as I discovered that obviously I had minus one experience in Bioinformatics...

The book is not short but not long either...340 pages...and it's full of recipes...

It starts with a basic introduction to R, which should be appreciated by newbies...but for more season developers that just can be skipped out...

The are chapters dedicated to Sequence Analysis, Protein Structure Analysis and even Machine Learning in Bioinformatics...

Of course there's a lot of new packages that are used for the recipes and well as many interesting graphics...

If you have some knowledge of Bioinformatics...then you should for sure get this book...if you're not...well...you can buy it anyway...even if you don't understand anything...it is still a book about R and it's full of interesting codes...so you might end learning a bunch of new things -;)

The recipes are well explained and the result is always shown...which is good so we can know exactly what to expect...

[Ximing]

Quite a few typos in just Chapter two, typos such as lacking of quote marks etc. I decide not to finish.