Phylogenetics, a hands-on introduction
Stilianos Louca
Jun 2023 · Stilianos Louca
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This book introduces concepts of modern phylogenetics through hands-on examples, including how to construct, read and analyze phylogenetic trees in the command line and in R. The book targets undergraduate and graduate students in biology, bioinformatics, data science or related fields. Numerous examples and exercises are included throughout the book, mostly using data from the scientific literature. Phylogenies used in the examples/exercises span the entire tree of life including viruses, bacteria, archaea and eukaryotes. Prerequisites include basic familiarity with the command line (bash) and with R. References to the scientific literature are provided throughout for the interested reader. This book is suitable as reading material in related university courses as well as for self-teaching.
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Stilianos Louca is an Assistant Professor at the University of Oregon, Department of Biology. He holds a German Diplom in physics, a BSc in mathematics and a PhD in applied mathematics. He is an expert in phylogenetics, bioinformatics and mathematical modeling. His research focuses on the ecology and evolution of microorganisms, mainly using computational approaches but also including experiments and field surveys. He has authored over 40 peer-reviewed publications in international scientific journals.
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