Algorithms for Phylogenetic Reconstructions
نویسندگان
چکیده
Preface 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 species-related data. Biological aspects like the molecular basis of evolution or methods of data acquisition and data preparation are not included. A number of textbooks have been published covering most of the material discussed in these lecture notes, e.g. by Hillis et al. [1], Graur and Li [2], Gusfield [3], Page an Holmes [4], Felsenstein [5], and others. Nevertheless we believe this collection with a focus on algorith-mic aspects of phylogenetic reconstruction methods is quite unique. 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. Meanwhile, this course has been given a number of times by various people: Jens Stoye (win-Each time the lecture notes were updated a little bit, and I have also made some additions for the winter 2006/2007 term. Nevertheless , some chapters are still not in a satisfactory state, sorry about this and all other errors contained. iii After the last course (winter 2006/2007), Jens Stoye again updated the lecture notes. Meanwhile , Zsuzsanna Lipták gave a lecture with overlapping content and made some suggestions to improve these notes. During the preparation for the lecture in winter 2009/2010, I integrated her advices and contributed with own improvements and additions. Mainly, I revised the PP algorithm and the chapter on small parsimony. Thanks to Peter Husemann for his valuable comments and help.
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تاریخ انتشار 2009