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| These lecture notes are the result of a collaborative effort of many people. They result from a series of lectures given by Martin Vingron (MPI/FU Berlin) and Jens Stoye (Bielefeld University) and a practical course by Hannes Luz (MPI, Berlin), and have subsequently been extended by Sebastian Böcker, Constantin Bannert, and Sven Rahmann. As the title implies, the focus of these notes is on ideas and algorithmic methods that are applied when evolutionary relationships are to be reconstructed from molecular sequences or other speciesrelated data. Biological aspects like the molecular basis of evolution or methods of data acquisition and data preparation are not included. Thanks We thank Rainer Matthiesen for his notes taken during the Winter 2001/2002 lectures in Berlin, Rod Page for help with the practical course, and Heiko Schmidt for several discussions. iii | |||||||||||||
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