Coding Genetics
A course on population genetics and R
Coding Genetics teaches programming in R by discussing key concepts of the dynamics and statistics of genes. You can use it as an introduction to programming or as a textbook of population genetics.
About
About the Book
The genomics revolution has made mathematical models and computer programming of genetic processes indispensable aspects of biological knowledge. 'Coding Genetics' helps you to obtain this knowledge. After going over the basics of programming with R, it introduces the dynamics and analysis of population genetics and shows how to write models that describe these systems with R.
The book is thus, on the one hand, a guide to computer programming that will help you develop and analyse models and, on the other hand, a textbook of population genetics. It will help you, whether you would like to learn to program (and to do so with important biological questions rather than with dry principles) or whether you already know some programming, and would like to use your knowledge to learn about one of the fundamental areas of biology: the genetics of populations.
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The Book
Minimum price
Suggested price$25.00$12.00
The book + code samples for exercises + data sets
Minimum price
Suggested price$30.00The book, samples R-scripts for the exercises, and the data sets used in the third section
$20.00
- Exercises and data setsThese files give a sample R-code for all of the exercises in the book. The file "Exercises.appendix.zip" contains R-scripts for the exercises in the appendix; "Exercises.text.zip" contains scripts for the exercises in the text. Once unzipped, the files can be loaded into R. . The file data.zip contains the data used to detect genetic patterns. They are text-files and can be read with any text editor.
Author
About the Author
Jacob C. Koella
Jacob Koella is a professor of evolutionary biology and parasitology at the University of Neuchatel in Switzerland.
With the equivalent of Master's degree in mechanical engineering (specialising in systems dynamics), a Phd in evolutionary ecology and several years experience working on the epidemiology of malaria in Tanzania, he conducts a considerable part of his research on mathematical theory combining the epidemiology and evolutionary ecology of parasites.
He teaches courses on mathematical modelling, parasitology and evolutionary ecology at the University of Neuchatel and at the ETH Zurich.
Contents
Table of Contents
Introduction
Essentials of R
- Installing R and an R interface
- Getting started: R as a calculator
- What if we want to store the results of our calculations?
- Object types
- Vectors
- Matrices
- Data frames
- Control structures
- Functions
- Simple plots
Dynamics of population genetics
- An example: sickle cell anaemia
- Hardy-Weinberg equilibrium: a null model for population genetics
- Genetic drift
- Non-random mating
- Selection
- Two-locus genetics
Analysis of genetic patterns
- Allele frequencies
- Hardy-Weinberg
- Spatial structure and genetic drift
- Signature of selection
- Genomic relationships
- Summary
Exercises
- Essentials of R
- Dynamics of genes
- Analysis of genetic patterns
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