Computational Phylogenetics

Tandy Warnow is a Founder Professor of Engineering at the University of Illinois, Urbana-Champaign. Her awards include the National Science Foundation Young Investigator Award (1994), the David and Lucile Packard Foundation Award in Science and Engineering (1996), a Radcliffe Institute for Advanced Study Fellowship (2003), and a John Simon Guggenheim Memorial Foundation Fellowship (2011). She was elected a Fellow of the Association for Computing Machinery (ACM) in 2015, and of the International Society for Computational Biology (ISCB) in 2017.

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• Preface; Glossary; Notation; Part I. Basic Techniques: 1. Brief introduction to phylogenetic estimation; 2. Trees; 3. Constructing trees from true subtrees; 4. Constructing trees from qualitative characters; 5. Distance-based tree estimation methods; 6. Consensus and agreement trees; 7. Supertrees; Part II. Molecular Phylogenetics: 8. Statistical gene tree estimation methods; 9. Multiple sequence alignment; 10. Phylogenomics: constructing species phylogenies from multi-locus data; 11. Designing methods for large-scale phylogeny estimation; Appendix A. Primer on biological data and evolution; Appendix B. Algorithm design and analysis; Appendix C. Guidelines for writing papers about computational methods; Appendix D. Projects; References; Index.