The increasing availability of molecular and genetic databases coupled with the growing power of computers gives biologists opportunities to address new issues, such as the patterns of molecular evolution, and re-assess old ones, such as the role of adaptation in species diversification. In the second edition,the book continues to integrate a wide variety of data analysis methods into a single and flexible interface: the R language. This open source language is available for a wide range of computer systems and has been adopted as a computational environment by many authors of statistical software. Adopting R as a main tool for phylogenetic analyses will ease the workflow in biologists' dataanalyses, ensure greater scientific repeatability, and enhance the exchange of ideas and methodological developments. The second edition is completed updated, covering the full gamut of R packages for this area that have been introduced to the market since its previous publication five years ago. There is also a new chapter on the simulation of evolutionary data. Graduate students andresearchers in evolutionary biology can use this book as a reference for dataanalyses, whereas researchers in bioinformatics interested in evolutionary analyses will learn how to implement these methods in R. The book starts with a presentation of different R packages and gives a short introduction to R for phylogeneticists unfamiliar with this language. The basic phylogenetic topics are covered: manipulation of phylogenetic data, phylogeny estimation, tree drawing, phylogenetic comparative methods, and estimation of ancestral characters.The chapter on tree drawing uses R's powerful graphical environment. A section deals with the analysis of diversification with phylogenies, one of the author's favorite research topics. The last chapter is devoted to the development of phylogenetic methods with R and interfaces with other languages (C and C++). Some exercises conclude these chapters. Step-by-step guidance for the use of R software packages in the analysis of phylogenetic and evolutionary biology data. New edition contains a chapter on simulation in evolutionary biology and new information on ade4 and other newR packages. Author is a respected name in the field. INDICE: Introduction. First Steps in R for Phylogeneticists. Phylogenetic Data in R. Plotting Phylogenies. Phylogeny Estimation. Analysis of Macroevolution with Phylogenies. Simulating Phylogenies and Evolutionary Data. Developingand Implementing Phylogenetic Methods in R. Short Course on Regular Expressions.
- ISBN: 978-1-4614-1742-2
- Editorial: Springer US
- Encuadernacion: Rústica
- Páginas: 386
- Fecha Publicación: 09/11/2011
- Nº Volúmenes: 1
- Idioma: Inglés